├── .git-blame-ignore-revs ├── .gitattributes ├── .github ├── ISSUE_TEMPLATE │ ├── bug_report.md │ └── feature_request.md └── workflows │ ├── backend.yml │ └── frontend.yml ├── .gitignore ├── .scalafmt.conf ├── CODE_OF_CONDUCT.md ├── COPYING.md ├── LICENSE ├── README.md ├── app ├── ErrorHandler.scala ├── Filters.scala ├── MainRouter.scala ├── Module.scala ├── ToolkitAppLoader.scala ├── controllers │ └── UptimeController.scala ├── modules │ ├── ActorModule.scala │ └── TELModule.scala └── services │ └── Configuration.scala ├── bin ├── geoip_update.sh └── install-local-deps.sh ├── conf ├── application.conf ├── blacklist.conf ├── ehcache.xml ├── ehcache.xml.template ├── ehcache.xsd ├── logback.xml ├── tel.conf └── tools.conf ├── doc ├── mail_example.mjml ├── nginx │ └── underConstruction.html └── toolkit.png ├── docker-compose.yml ├── frontend ├── .eslintrc.js ├── .gitignore ├── .prettierignore ├── .prettierrc.js ├── .template.env.development.local ├── README.md ├── index.html ├── jest.config.js ├── package.json ├── public │ ├── apple-touch-icon.png │ ├── clans │ │ ├── clans.jar │ │ └── clans_userguide.pdf │ ├── favicon-32x32.png │ ├── favicon-green.svg │ ├── manifest.json │ ├── robots.txt │ ├── sample-seqs │ │ ├── a3mProtSeq │ │ ├── coiledcoilSeq │ │ ├── inputClustal │ │ ├── modellerPIR │ │ ├── msaProtSeq │ │ ├── multiProtSeq │ │ ├── ompSeq │ │ ├── patternProt │ │ ├── pdbInput │ │ ├── protHeaders │ │ ├── protyadA │ │ ├── singleDNASeq │ │ ├── singleProtSeq │ │ ├── singleProtSeq2 │ │ └── tprSeq │ └── sitemap.xml ├── src │ ├── App.vue │ ├── assets │ │ ├── fonts │ │ │ ├── NotoSans-Bold.ttf │ │ │ ├── NotoSans-Italic.ttf │ │ │ ├── NotoSans-Regular.ttf │ │ │ ├── SourceCodePro-Bold.ttf │ │ │ └── SourceCodePro-Regular.ttf │ │ ├── images │ │ │ ├── Toolkit100.png │ │ │ ├── arrow-top.svg │ │ │ ├── ellipsis.gif │ │ │ ├── flag-de.png │ │ │ ├── flag-en.png │ │ │ ├── fold_galaxy.png │ │ │ └── minlogo.svg │ │ └── scss │ │ │ ├── _form-elements.scss │ │ │ ├── _modals.scss │ │ │ ├── _reset.scss │ │ │ ├── _sequence-coloring.scss │ │ │ └── _variables.scss │ ├── bootstrap.ts │ ├── components │ │ ├── admin │ │ │ ├── AdminStatistics.vue │ │ │ └── AdminView.vue │ │ ├── auth │ │ │ ├── LoginForm.vue │ │ │ ├── Profile.vue │ │ │ ├── RegisterForm.vue │ │ │ └── Settings.vue │ │ ├── index │ │ │ ├── IndexView.vue │ │ │ ├── SearchField.vue │ │ │ ├── ToolFinder.vue │ │ │ └── UpdatesSection.vue │ │ ├── jobmanager │ │ │ └── JobManagerView.vue │ │ ├── jobs │ │ │ ├── JobView.vue │ │ │ ├── ToolCitationInfo.vue │ │ │ ├── result-tabs │ │ │ │ ├── AlignmentViewerTab.vue │ │ │ │ ├── ClansResultsTab.vue │ │ │ │ ├── ClustalAlignmentTab.vue │ │ │ │ ├── DataTab.vue │ │ │ │ ├── FastaAlignmentTab.vue │ │ │ │ ├── HHblitsResultsTab.vue │ │ │ │ ├── HHompResultsTab.vue │ │ │ │ ├── HHpredResultsTab.vue │ │ │ │ ├── HhrepidResultsTab.vue │ │ │ │ ├── HmmerResultsTab.vue │ │ │ │ ├── ImagesViewTab.vue │ │ │ │ ├── NGL3DStructureView.vue │ │ │ │ ├── PLMBlastResultsTab.vue │ │ │ │ ├── PatsearchResultsTab.vue │ │ │ │ ├── PlotTab.vue │ │ │ │ ├── PsiblastResultsTab.vue │ │ │ │ ├── Quick2DResultsTab.vue │ │ │ │ ├── Seq2IDResultsTab.vue │ │ │ │ ├── TemplateSelectionViewTab.vue │ │ │ │ ├── TprpredResultsTab.vue │ │ │ │ ├── TreeTab.vue │ │ │ │ └── sections │ │ │ │ │ ├── HitListTable.vue │ │ │ │ │ └── HitMap.vue │ │ │ └── state-tabs │ │ │ │ ├── JobErrorTab.vue │ │ │ │ ├── JobLimitReachedTab.vue │ │ │ │ ├── JobPendingTab.vue │ │ │ │ ├── JobPreparedTab.vue │ │ │ │ ├── JobQueuedTab.vue │ │ │ │ ├── JobRunningTab.vue │ │ │ │ └── JobSubmittedTab.vue │ │ ├── modals │ │ │ ├── AuthModal.vue │ │ │ ├── BaseModal.vue │ │ │ ├── FooterLinkModal.vue │ │ │ ├── ForwardingModal.vue │ │ │ ├── HelpModal.vue │ │ │ ├── ResetPasswordModal.vue │ │ │ ├── TemplateAlignmentModal.vue │ │ │ ├── TemplateStructureModal.vue │ │ │ ├── UpdatesModal.vue │ │ │ └── VerificationModal.vue │ │ ├── navigation │ │ │ ├── Footer.vue │ │ │ ├── Header.vue │ │ │ ├── MaintenanceMessage.vue │ │ │ ├── NavBar.vue │ │ │ ├── OffscreenMenu.vue │ │ │ └── TopNavBar.vue │ │ ├── sidebar │ │ │ ├── JobList.vue │ │ │ └── SideBar.vue │ │ ├── tools │ │ │ ├── AlignmentViewer.vue │ │ │ ├── ToolView.vue │ │ │ └── parameters │ │ │ │ ├── BooleanParameter.vue │ │ │ │ ├── CustomJobIdInput.vue │ │ │ │ ├── EmailNotificationSwitch.vue │ │ │ │ ├── JobPublicToggle.vue │ │ │ │ ├── NumberParameter.vue │ │ │ │ ├── Section.vue │ │ │ │ ├── SelectParameter.vue │ │ │ │ ├── TextAreaParameter.vue │ │ │ │ ├── TextAreaSubComponent.vue │ │ │ │ ├── TextInputParameter.vue │ │ │ │ └── special │ │ │ │ ├── AlignmentViewerView.vue │ │ │ │ ├── HHpredSelectsParameter.vue │ │ │ │ ├── ModellerParameter.vue │ │ │ │ └── ReformatView.vue │ │ └── utils │ │ │ ├── Accordion.vue │ │ │ ├── IntersectionObserver.vue │ │ │ ├── Loading.vue │ │ │ ├── LoadingView.vue │ │ │ ├── LoadingWrapper.vue │ │ │ ├── NotFoundView.vue │ │ │ ├── ScrollTopButton.vue │ │ │ └── TimeoutView.vue │ ├── conf │ │ ├── FrontendTools.ts │ │ └── ToolSections.ts │ ├── i18n │ │ ├── index.ts │ │ └── lang │ │ │ ├── countries.ts │ │ │ ├── de.ts │ │ │ ├── en.ts │ │ │ ├── extras │ │ │ └── modals │ │ │ │ └── toolHelp │ │ │ │ ├── ali2d.ts │ │ │ │ ├── aln2plot.ts │ │ │ │ ├── alnviz.ts │ │ │ │ ├── ancescon.ts │ │ │ │ ├── backtrans.ts │ │ │ │ ├── clans.ts │ │ │ │ ├── clustalo.ts │ │ │ │ ├── common.ts │ │ │ │ ├── deepcoil.ts │ │ │ │ ├── deepcoil2.ts │ │ │ │ ├── diamond_deepclust.ts │ │ │ │ ├── hhblits.ts │ │ │ │ ├── hhfilter.ts │ │ │ │ ├── hhomp.ts │ │ │ │ ├── hhpred.ts │ │ │ │ ├── hhpred_manual.ts │ │ │ │ ├── hhrepid.ts │ │ │ │ ├── hmmer.ts │ │ │ │ ├── kalign.ts │ │ │ │ ├── mafft.ts │ │ │ │ ├── marcoil.ts │ │ │ │ ├── mmseqs2.ts │ │ │ │ ├── modeller.ts │ │ │ │ ├── msaprobs.ts │ │ │ │ ├── muscle.ts │ │ │ │ ├── patsearch.ts │ │ │ │ ├── pcoils.ts │ │ │ │ ├── phyml.ts │ │ │ │ ├── plmblast.ts │ │ │ │ ├── psiblast.ts │ │ │ │ ├── quick2d.ts │ │ │ │ ├── reformat.ts │ │ │ │ ├── repper.ts │ │ │ │ ├── retseq.ts │ │ │ │ ├── samcc.ts │ │ │ │ ├── seq2id.ts │ │ │ │ ├── sixframe.ts │ │ │ │ ├── tcoffee.ts │ │ │ │ └── tprpred.ts │ │ │ ├── help │ │ │ └── en.ts │ │ │ ├── modules │ │ │ ├── auth-en.ts │ │ │ ├── jobs-en.ts │ │ │ └── tools-en.ts │ │ │ └── updates.ts │ ├── main.ts │ ├── mixins │ │ ├── ParameterRememberMixin.ts │ │ ├── ResultTabMixin.ts │ │ ├── SearchResultTabMixin.ts │ │ ├── ToolParameterMixin.ts │ │ ├── TourMixin.ts │ │ └── hasHTMLTitle.ts │ ├── modules │ │ ├── msa │ │ │ └── msa.min.js │ │ ├── notifications │ │ │ ├── index.ts │ │ │ └── types.d.ts │ │ ├── reformat │ │ │ ├── formats │ │ │ │ ├── A3M.ts │ │ │ │ ├── CLUSTAL.ts │ │ │ │ ├── FASTA.ts │ │ │ │ ├── PIR.ts │ │ │ │ └── STOCKHOLM.ts │ │ │ ├── index.ts │ │ │ ├── sequenceTypes │ │ │ │ ├── DNA.ts │ │ │ │ ├── PROTEIN.ts │ │ │ │ └── RNA.ts │ │ │ ├── types.ts │ │ │ └── utils.ts │ │ └── title_manager │ │ │ ├── index.ts │ │ │ └── types.d.ts │ ├── router │ │ ├── index.ts │ │ └── routes.ts │ ├── services │ │ ├── AuthService.ts │ │ ├── BackendService.ts │ │ ├── JobService.ts │ │ ├── ParameterRememberService.ts │ │ ├── ResultsService.ts │ │ ├── SampleSeqService.ts │ │ └── ToolService.ts │ ├── store │ │ └── types.ts │ ├── stores │ │ ├── auth.ts │ │ ├── index.ts │ │ ├── jobs.ts │ │ ├── root.ts │ │ └── tools.ts │ ├── transitions │ │ ├── ExpandHeight.vue │ │ └── VelocityFade.vue │ ├── types │ │ ├── index.d.ts │ │ ├── shims-tsx.d.ts │ │ ├── shims-vue.d.ts │ │ └── toolkit │ │ │ ├── admin.ts │ │ │ ├── auth.ts │ │ │ ├── enums.ts │ │ │ ├── jobs.ts │ │ │ ├── results.ts │ │ │ ├── tools.ts │ │ │ ├── utils.ts │ │ │ └── validation.ts │ └── util │ │ ├── EventBus.ts │ │ ├── LoggerConfig.ts │ │ ├── SequenceUtils.ts │ │ ├── Utils.ts │ │ └── validation.ts ├── tests │ └── unit │ │ ├── components │ │ ├── header │ │ │ └── NavBar.spec.ts │ │ └── tools │ │ │ └── parameters │ │ │ ├── BooleanParameter.spec.ts │ │ │ └── SelectParameter.spec.ts │ │ ├── mocks │ │ └── tools.ts │ │ └── modules │ │ └── reformat │ │ ├── formats │ │ ├── CLUSTAL.spec.ts.bk │ │ ├── FASTA.spec.ts │ │ ├── PIR.spec.ts │ │ └── STOCKHOLM.spec.ts │ │ ├── reformat.spec.ts │ │ └── sequenceTypes │ │ └── PROTEIN.ts ├── tsconfig.json ├── vite.config.js └── yarn.lock ├── lib ├── Psiblast_add_links.py ├── generateAlignment.sh ├── hmmer2json.py ├── manipulate_json.py ├── parse_BLAST_HTML.py ├── retrieveAlnEval.sh ├── retrieveFullSeq.sh ├── retrieveFullSeqHHblits.sh ├── templateAlignment.sh ├── templateAlignmentHHblits.sh └── templateAlignmentHHomp.sh ├── modules ├── auth │ └── src │ │ └── main │ │ └── scala │ │ └── de │ │ └── proteinevolution │ │ └── auth │ │ ├── AuthRouter.scala │ │ ├── controllers │ │ ├── AuthController.scala │ │ ├── ValidationController.scala │ │ └── VerificationController.scala │ │ ├── dao │ │ └── UserDao.scala │ │ ├── models │ │ ├── FormDefinitions.scala │ │ ├── JSONTemplate.scala │ │ ├── MailTemplate.scala │ │ └── Session.scala │ │ ├── services │ │ └── UserSessionService.scala │ │ └── util │ │ ├── UserAction.scala │ │ └── UserRequest.scala ├── backend │ └── src │ │ └── main │ │ └── scala │ │ └── de │ │ └── proteinevolution │ │ └── backend │ │ ├── BackendRouter.scala │ │ ├── actors │ │ └── DatabaseMonitor.scala │ │ ├── controllers │ │ └── BackendController.scala │ │ └── dao │ │ └── BackendDao.scala ├── base │ └── src │ │ └── main │ │ └── scala │ │ └── de │ │ └── proteinevolution │ │ └── base │ │ ├── ToolkitRouter.scala │ │ ├── controllers │ │ └── ToolkitController.scala │ │ └── helpers │ │ └── ToolkitTypes.scala ├── cluster-api │ └── src │ │ └── main │ │ └── scala │ │ └── de │ │ └── proteinevolution │ │ └── cluster │ │ └── api │ │ ├── Polling.scala │ │ ├── QStat.scala │ │ ├── Qdel.scala │ │ └── SGELoad.scala ├── cluster │ └── src │ │ └── main │ │ └── scala │ │ └── de │ │ └── proteinevolution │ │ └── cluster │ │ ├── ClusterModule.scala │ │ ├── ClusterSubscriber.scala │ │ └── QstatStream.scala ├── common │ └── src │ │ └── main │ │ └── scala │ │ └── de │ │ └── proteinevolution │ │ └── common │ │ ├── models │ │ ├── ConstantsV2.scala │ │ ├── ToolName.scala │ │ ├── database │ │ │ └── jobs │ │ │ │ └── JobState.scala │ │ ├── forwarding │ │ │ ├── ForwardModalOptions.scala │ │ │ └── ForwardingError.scala │ │ └── util │ │ │ └── ZonedDateTimeHelper.scala │ │ └── parsers │ │ └── FASTA.scala ├── jobs │ └── src │ │ └── main │ │ └── scala │ │ └── de │ │ └── proteinevolution │ │ └── jobs │ │ ├── JobsRouter.scala │ │ ├── actors │ │ └── JobActor.scala │ │ ├── controllers │ │ ├── ClusterApiController.scala │ │ ├── FileController.scala │ │ ├── HHController.scala │ │ ├── JobGetController.scala │ │ ├── ProcessController.scala │ │ ├── ResultsController.scala │ │ └── SubmissionController.scala │ │ ├── dao │ │ └── JobDao.scala │ │ ├── db │ │ └── ResultFileAccessor.scala │ │ ├── models │ │ ├── ForwardingData.scala │ │ ├── HHContext.scala │ │ ├── Job.scala │ │ ├── JobClusterData.scala │ │ ├── JobHashError.scala │ │ ├── JobSubmitError.scala │ │ ├── ResubmitData.scala │ │ └── ResultsForm.scala │ │ ├── results │ │ ├── Accession.scala │ │ ├── AlignmentItem.scala │ │ ├── AlignmentResult.scala │ │ ├── General.scala │ │ ├── HHBlitsHSP.scala │ │ ├── HHBlitsInfo.scala │ │ ├── HHBlitsQuery.scala │ │ ├── HHBlitsResult.scala │ │ ├── HHBlitsTemplate.scala │ │ ├── HHPredHSP.scala │ │ ├── HHPredInfo.scala │ │ ├── HHPredQuery.scala │ │ ├── HHPredResult.scala │ │ ├── HHPredTemplate.scala │ │ ├── HHompHSP.scala │ │ ├── HHompInfo.scala │ │ ├── HHompQuery.scala │ │ ├── HHompResult.scala │ │ ├── HHompTemplate.scala │ │ ├── HSP.scala │ │ ├── HmmerHSP.scala │ │ ├── HmmerResult.scala │ │ ├── LinkUtil.scala │ │ ├── PLMBlastHSP.scala │ │ ├── PLMBlastResult.scala │ │ ├── PSIBlastHSP.scala │ │ ├── PSIBlastResult.scala │ │ ├── PatSearchResult.scala │ │ ├── Quick2DResult.scala │ │ ├── SearchResult.scala │ │ └── TPRPredResult.scala │ │ └── services │ │ ├── HHService.scala │ │ ├── JobActorAccess.scala │ │ ├── JobDispatcher.scala │ │ ├── JobFolderValidation.scala │ │ ├── JobFrontendToolsService.scala │ │ ├── JobHashCheckService.scala │ │ ├── JobHasher.scala │ │ ├── JobIdProvider.scala │ │ ├── JobResubmitService.scala │ │ ├── JobTerminator.scala │ │ ├── ProcessService.scala │ │ └── ToolNameGetService.scala ├── message │ └── src │ │ └── main │ │ └── scala │ │ └── de │ │ └── proteinevolution │ │ └── message │ │ ├── MessageRouter.scala │ │ ├── actors │ │ └── WebSocketActor.scala │ │ ├── controllers │ │ └── MessageController.scala │ │ └── helpers │ │ └── CirceFlowTransformer.scala ├── migrations │ └── src │ │ └── main │ │ ├── java │ │ └── de │ │ │ └── proteinevolution │ │ │ └── migrations │ │ │ └── changelogs │ │ │ └── DatabaseChangelog.java │ │ └── scala │ │ └── de │ │ └── proteinevolution │ │ └── migrations │ │ └── services │ │ └── MongobeeRunner.scala ├── statistics │ └── src │ │ └── main │ │ └── scala │ │ └── de │ │ └── proteinevolution │ │ └── statistics │ │ ├── DatedToolStats.scala │ │ ├── JobEvent.scala │ │ ├── JobEventLog.scala │ │ ├── StatisticsObject.scala │ │ ├── ToolStatistic.scala │ │ ├── ToolStatisticCollection.scala │ │ └── UserStatistic.scala ├── tel │ └── src │ │ └── main │ │ └── scala │ │ └── de │ │ └── proteinevolution │ │ └── tel │ │ ├── Observer.scala │ │ ├── TEL.scala │ │ ├── TELConstants.scala │ │ ├── TELProvider.scala │ │ ├── TELRegex.scala │ │ ├── execution │ │ ├── ExecutionContext.scala │ │ └── WrapperExecutionFactory.scala │ │ ├── param │ │ ├── Implicits.scala │ │ ├── Param.scala │ │ ├── ParamCollector.scala │ │ ├── ParamFile.scala │ │ └── Params.scala │ │ └── runscripts │ │ ├── Parameter.scala │ │ ├── Runscript.scala │ │ └── RunscriptManager.scala ├── tools │ └── src │ │ └── main │ │ └── scala │ │ └── de │ │ └── proteinevolution │ │ └── tools │ │ ├── ConfigWatcher.scala │ │ ├── Tool.scala │ │ ├── ToolConfig.scala │ │ ├── ToolsModule.scala │ │ ├── forms │ │ ├── ToolFormSimple.scala │ │ └── ValidationParamsForm.scala │ │ └── parameters │ │ ├── ForwardingMode.scala │ │ ├── ParamAccess.scala │ │ ├── Parameter.scala │ │ ├── ParameterSection.scala │ │ ├── TextAreaInputType.scala │ │ └── ToolParameters.scala ├── ui │ └── src │ │ └── main │ │ └── scala │ │ └── de │ │ └── proteinevolution │ │ └── ui │ │ ├── UiRouter.scala │ │ └── controllers │ │ └── UiController.scala ├── user │ └── src │ │ └── main │ │ └── scala │ │ └── de │ │ └── proteinevolution │ │ └── user │ │ ├── AccountType.scala │ │ ├── Location.scala │ │ ├── SessionData.scala │ │ ├── User.scala │ │ ├── UserConfig.scala │ │ ├── UserData.scala │ │ └── UserToken.scala └── util │ └── src │ └── main │ └── scala │ └── de │ └── proteinevolution │ └── util │ ├── FNV.scala │ ├── FileLoader.scala │ ├── GeoIPInfo.scala │ └── LocationProvider.scala ├── project ├── Dependencies.scala ├── Release.scala ├── Settings.scala ├── build.properties └── plugins.sbt ├── tel ├── env │ └── environment.sh ├── paramspec │ ├── LAST_PARAMS_REFRESH │ ├── PARAMS │ ├── alignmacmode.prop │ ├── alignment_cutoff.prop │ ├── alignmode.prop │ ├── amino_nucl_rel.prop │ ├── bfactor.prop │ ├── blast_incl_eval.prop │ ├── clans_eval.prop │ ├── clustering_mode.prop │ ├── codon_table.prop │ ├── cosine_percentile_cutoff.prop │ ├── desc.prop │ ├── diamond_min_aln_cov.prop │ ├── diamond_min_seqid.prop │ ├── domain_bound_detection.prop │ ├── eff_crick_angle.prop │ ├── eval_tpr.prop │ ├── evalue.prop │ ├── genetic_code.prop │ ├── grammar.prop │ ├── hhblits_incl_eval.prop │ ├── hhblitsdb.py │ ├── hhomp_incl_eval.prop │ ├── hhompdb.py │ ├── hhpred_incl_eval.prop │ ├── hhsuitedb.py │ ├── hmmerdb.py │ ├── in_format.prop │ ├── inc_amino.prop │ ├── inc_nucl.prop │ ├── macthreshold.prop │ ├── matrix.prop │ ├── matrix_marcoil.prop │ ├── matrix_phyml.prop │ ├── max_hhblits_iter.prop │ ├── maxrounds.prop │ ├── merge_hits.prop │ ├── merge_iters.prop │ ├── min_aln_cov.prop │ ├── min_cov.prop │ ├── min_seqid.prop │ ├── min_seqid_query.prop │ ├── msa_gen_max_iter.prop │ ├── msa_gen_max_iter_hhrepid.prop │ ├── msa_gen_method.prop │ ├── no_replicates.prop │ ├── out_format.prop │ ├── output_order.prop │ ├── patsearchdb.py │ ├── pcoils_input_mode.prop │ ├── pcoils_matrix.prop │ ├── pcoils_weighting.prop │ ├── plm_aln_mode.prop │ ├── plm_gap_ext.prop │ ├── plmblastdb.py │ ├── pmin.prop │ ├── proteomes.py │ ├── quick_iters.prop │ ├── rep_pval_threshold.prop │ ├── repper_input_mode.prop │ ├── samcc_periodicity.prop │ ├── score_ss.prop │ ├── self_aln_pval_threshold.prop │ ├── seqcount.prop │ ├── sigma_factor.prop │ ├── span.prop │ ├── ss_scoring.prop │ ├── standarddb.py │ ├── target_psi_db.prop │ ├── transition_probability.prop │ └── win_len.prop ├── runscripts │ ├── PREFIX │ ├── SUFFIX │ ├── ali2d.sh │ ├── aln2plot.sh │ ├── ancescon.sh │ ├── backtrans.sh │ ├── clans.sh │ ├── clustalo.sh │ ├── deepcoil.sh │ ├── deepcoil2.sh │ ├── diamond_deepclust.sh │ ├── formatseq.sh │ ├── hhblits.sh │ ├── hhfilter.sh │ ├── hhomp.sh │ ├── hhpred.sh │ ├── hhpred_manual.sh │ ├── hhrepid.sh │ ├── hmmer.sh │ ├── kalign.sh │ ├── mafft.sh │ ├── marcoil.sh │ ├── mmseqs2.sh │ ├── modeller.sh │ ├── msaprobs.sh │ ├── muscle.sh │ ├── patsearch.sh │ ├── pcoils.sh │ ├── phyml.sh │ ├── plmblast.sh │ ├── psiblast.sh │ ├── quick2d.sh │ ├── repper.sh │ ├── retseq.sh │ ├── samcc.sh │ ├── seq2id.sh │ ├── sixframe.sh │ ├── tcoffee.sh │ └── tprpred.sh └── wrapper.sh ├── test ├── BrowserSpec.scala ├── ToolkitSpec.scala ├── controllers │ └── UptimeSpec.scala ├── jobs │ └── SubmissionControllerSpec.scala └── resources │ └── alignment.txt ├── version.sbt └── yarn.lock /.git-blame-ignore-revs: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/.git-blame-ignore-revs -------------------------------------------------------------------------------- /.gitattributes: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/.gitattributes -------------------------------------------------------------------------------- /.github/ISSUE_TEMPLATE/bug_report.md: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/.github/ISSUE_TEMPLATE/bug_report.md -------------------------------------------------------------------------------- /.github/ISSUE_TEMPLATE/feature_request.md: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/.github/ISSUE_TEMPLATE/feature_request.md -------------------------------------------------------------------------------- /.github/workflows/backend.yml: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/.github/workflows/backend.yml -------------------------------------------------------------------------------- /.github/workflows/frontend.yml: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/.github/workflows/frontend.yml -------------------------------------------------------------------------------- /.gitignore: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/.gitignore -------------------------------------------------------------------------------- /.scalafmt.conf: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/.scalafmt.conf -------------------------------------------------------------------------------- /CODE_OF_CONDUCT.md: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/CODE_OF_CONDUCT.md -------------------------------------------------------------------------------- /COPYING.md: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/COPYING.md -------------------------------------------------------------------------------- /LICENSE: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/LICENSE -------------------------------------------------------------------------------- /README.md: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/README.md -------------------------------------------------------------------------------- /app/ErrorHandler.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/app/ErrorHandler.scala -------------------------------------------------------------------------------- /app/Filters.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/app/Filters.scala -------------------------------------------------------------------------------- /app/MainRouter.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/app/MainRouter.scala -------------------------------------------------------------------------------- /app/Module.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/app/Module.scala -------------------------------------------------------------------------------- /app/ToolkitAppLoader.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/app/ToolkitAppLoader.scala -------------------------------------------------------------------------------- /app/controllers/UptimeController.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/app/controllers/UptimeController.scala -------------------------------------------------------------------------------- /app/modules/ActorModule.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/app/modules/ActorModule.scala -------------------------------------------------------------------------------- /app/modules/TELModule.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/app/modules/TELModule.scala -------------------------------------------------------------------------------- /app/services/Configuration.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/app/services/Configuration.scala -------------------------------------------------------------------------------- /bin/geoip_update.sh: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/bin/geoip_update.sh -------------------------------------------------------------------------------- /bin/install-local-deps.sh: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/bin/install-local-deps.sh -------------------------------------------------------------------------------- /conf/application.conf: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/conf/application.conf -------------------------------------------------------------------------------- /conf/blacklist.conf: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/conf/blacklist.conf -------------------------------------------------------------------------------- /conf/ehcache.xml: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/conf/ehcache.xml -------------------------------------------------------------------------------- /conf/ehcache.xml.template: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/conf/ehcache.xml.template -------------------------------------------------------------------------------- /conf/ehcache.xsd: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/conf/ehcache.xsd -------------------------------------------------------------------------------- /conf/logback.xml: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/conf/logback.xml -------------------------------------------------------------------------------- /conf/tel.conf: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/conf/tel.conf -------------------------------------------------------------------------------- /conf/tools.conf: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/conf/tools.conf -------------------------------------------------------------------------------- /doc/mail_example.mjml: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/doc/mail_example.mjml -------------------------------------------------------------------------------- /doc/nginx/underConstruction.html: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/doc/nginx/underConstruction.html -------------------------------------------------------------------------------- /doc/toolkit.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/doc/toolkit.png -------------------------------------------------------------------------------- /docker-compose.yml: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/docker-compose.yml -------------------------------------------------------------------------------- /frontend/.eslintrc.js: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/.eslintrc.js -------------------------------------------------------------------------------- /frontend/.gitignore: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/.gitignore -------------------------------------------------------------------------------- /frontend/.prettierignore: -------------------------------------------------------------------------------- 1 | node_modules 2 | /dist 3 | *.min.js 4 | package.json 5 | -------------------------------------------------------------------------------- /frontend/.prettierrc.js: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/.prettierrc.js -------------------------------------------------------------------------------- /frontend/.template.env.development.local: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/.template.env.development.local -------------------------------------------------------------------------------- /frontend/README.md: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/README.md -------------------------------------------------------------------------------- /frontend/index.html: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/index.html -------------------------------------------------------------------------------- /frontend/jest.config.js: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/jest.config.js -------------------------------------------------------------------------------- /frontend/package.json: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/package.json -------------------------------------------------------------------------------- /frontend/public/apple-touch-icon.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/public/apple-touch-icon.png -------------------------------------------------------------------------------- /frontend/public/clans/clans.jar: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/public/clans/clans.jar -------------------------------------------------------------------------------- /frontend/public/clans/clans_userguide.pdf: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/public/clans/clans_userguide.pdf -------------------------------------------------------------------------------- /frontend/public/favicon-32x32.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/public/favicon-32x32.png -------------------------------------------------------------------------------- /frontend/public/favicon-green.svg: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/public/favicon-green.svg -------------------------------------------------------------------------------- /frontend/public/manifest.json: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/public/manifest.json -------------------------------------------------------------------------------- /frontend/public/robots.txt: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/public/robots.txt -------------------------------------------------------------------------------- /frontend/public/sample-seqs/a3mProtSeq: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/public/sample-seqs/a3mProtSeq -------------------------------------------------------------------------------- /frontend/public/sample-seqs/coiledcoilSeq: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/public/sample-seqs/coiledcoilSeq -------------------------------------------------------------------------------- /frontend/public/sample-seqs/inputClustal: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/public/sample-seqs/inputClustal -------------------------------------------------------------------------------- /frontend/public/sample-seqs/modellerPIR: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/public/sample-seqs/modellerPIR -------------------------------------------------------------------------------- /frontend/public/sample-seqs/msaProtSeq: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/public/sample-seqs/msaProtSeq -------------------------------------------------------------------------------- /frontend/public/sample-seqs/multiProtSeq: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/public/sample-seqs/multiProtSeq -------------------------------------------------------------------------------- /frontend/public/sample-seqs/ompSeq: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/public/sample-seqs/ompSeq -------------------------------------------------------------------------------- /frontend/public/sample-seqs/patternProt: -------------------------------------------------------------------------------- 1 | G-x(4)-GK-[TS] -------------------------------------------------------------------------------- /frontend/public/sample-seqs/pdbInput: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/public/sample-seqs/pdbInput -------------------------------------------------------------------------------- /frontend/public/sample-seqs/protHeaders: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/public/sample-seqs/protHeaders -------------------------------------------------------------------------------- /frontend/public/sample-seqs/protyadA: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/public/sample-seqs/protyadA -------------------------------------------------------------------------------- /frontend/public/sample-seqs/singleDNASeq: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/public/sample-seqs/singleDNASeq -------------------------------------------------------------------------------- /frontend/public/sample-seqs/singleProtSeq: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/public/sample-seqs/singleProtSeq -------------------------------------------------------------------------------- /frontend/public/sample-seqs/singleProtSeq2: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/public/sample-seqs/singleProtSeq2 -------------------------------------------------------------------------------- /frontend/public/sample-seqs/tprSeq: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/public/sample-seqs/tprSeq -------------------------------------------------------------------------------- /frontend/public/sitemap.xml: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/public/sitemap.xml -------------------------------------------------------------------------------- /frontend/src/App.vue: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/App.vue -------------------------------------------------------------------------------- /frontend/src/assets/fonts/NotoSans-Bold.ttf: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/assets/fonts/NotoSans-Bold.ttf -------------------------------------------------------------------------------- /frontend/src/assets/fonts/NotoSans-Italic.ttf: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/assets/fonts/NotoSans-Italic.ttf -------------------------------------------------------------------------------- /frontend/src/assets/fonts/NotoSans-Regular.ttf: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/assets/fonts/NotoSans-Regular.ttf -------------------------------------------------------------------------------- /frontend/src/assets/fonts/SourceCodePro-Bold.ttf: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/assets/fonts/SourceCodePro-Bold.ttf -------------------------------------------------------------------------------- /frontend/src/assets/fonts/SourceCodePro-Regular.ttf: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/assets/fonts/SourceCodePro-Regular.ttf -------------------------------------------------------------------------------- /frontend/src/assets/images/Toolkit100.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/assets/images/Toolkit100.png -------------------------------------------------------------------------------- /frontend/src/assets/images/arrow-top.svg: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/assets/images/arrow-top.svg -------------------------------------------------------------------------------- /frontend/src/assets/images/ellipsis.gif: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/assets/images/ellipsis.gif -------------------------------------------------------------------------------- /frontend/src/assets/images/flag-de.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/assets/images/flag-de.png -------------------------------------------------------------------------------- /frontend/src/assets/images/flag-en.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/assets/images/flag-en.png -------------------------------------------------------------------------------- /frontend/src/assets/images/fold_galaxy.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/assets/images/fold_galaxy.png -------------------------------------------------------------------------------- /frontend/src/assets/images/minlogo.svg: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/assets/images/minlogo.svg -------------------------------------------------------------------------------- /frontend/src/assets/scss/_form-elements.scss: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/assets/scss/_form-elements.scss -------------------------------------------------------------------------------- /frontend/src/assets/scss/_modals.scss: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/assets/scss/_modals.scss -------------------------------------------------------------------------------- /frontend/src/assets/scss/_reset.scss: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/assets/scss/_reset.scss -------------------------------------------------------------------------------- /frontend/src/assets/scss/_sequence-coloring.scss: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/assets/scss/_sequence-coloring.scss -------------------------------------------------------------------------------- /frontend/src/assets/scss/_variables.scss: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/assets/scss/_variables.scss -------------------------------------------------------------------------------- /frontend/src/bootstrap.ts: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/bootstrap.ts -------------------------------------------------------------------------------- /frontend/src/components/admin/AdminStatistics.vue: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/components/admin/AdminStatistics.vue -------------------------------------------------------------------------------- /frontend/src/components/admin/AdminView.vue: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/components/admin/AdminView.vue -------------------------------------------------------------------------------- /frontend/src/components/auth/LoginForm.vue: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/components/auth/LoginForm.vue -------------------------------------------------------------------------------- /frontend/src/components/auth/Profile.vue: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/components/auth/Profile.vue -------------------------------------------------------------------------------- /frontend/src/components/auth/RegisterForm.vue: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/components/auth/RegisterForm.vue -------------------------------------------------------------------------------- /frontend/src/components/auth/Settings.vue: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/components/auth/Settings.vue -------------------------------------------------------------------------------- /frontend/src/components/index/IndexView.vue: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/components/index/IndexView.vue -------------------------------------------------------------------------------- /frontend/src/components/index/SearchField.vue: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/components/index/SearchField.vue -------------------------------------------------------------------------------- /frontend/src/components/index/ToolFinder.vue: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/components/index/ToolFinder.vue -------------------------------------------------------------------------------- /frontend/src/components/index/UpdatesSection.vue: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/components/index/UpdatesSection.vue -------------------------------------------------------------------------------- /frontend/src/components/jobmanager/JobManagerView.vue: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/components/jobmanager/JobManagerView.vue -------------------------------------------------------------------------------- /frontend/src/components/jobs/JobView.vue: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/components/jobs/JobView.vue -------------------------------------------------------------------------------- /frontend/src/components/jobs/ToolCitationInfo.vue: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/components/jobs/ToolCitationInfo.vue -------------------------------------------------------------------------------- /frontend/src/components/jobs/result-tabs/AlignmentViewerTab.vue: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/components/jobs/result-tabs/AlignmentViewerTab.vue -------------------------------------------------------------------------------- /frontend/src/components/jobs/result-tabs/ClansResultsTab.vue: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/components/jobs/result-tabs/ClansResultsTab.vue -------------------------------------------------------------------------------- /frontend/src/components/jobs/result-tabs/ClustalAlignmentTab.vue: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/components/jobs/result-tabs/ClustalAlignmentTab.vue -------------------------------------------------------------------------------- /frontend/src/components/jobs/result-tabs/DataTab.vue: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/components/jobs/result-tabs/DataTab.vue -------------------------------------------------------------------------------- /frontend/src/components/jobs/result-tabs/FastaAlignmentTab.vue: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/components/jobs/result-tabs/FastaAlignmentTab.vue -------------------------------------------------------------------------------- /frontend/src/components/jobs/result-tabs/HHblitsResultsTab.vue: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/components/jobs/result-tabs/HHblitsResultsTab.vue -------------------------------------------------------------------------------- /frontend/src/components/jobs/result-tabs/HHompResultsTab.vue: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/components/jobs/result-tabs/HHompResultsTab.vue -------------------------------------------------------------------------------- /frontend/src/components/jobs/result-tabs/HHpredResultsTab.vue: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/components/jobs/result-tabs/HHpredResultsTab.vue -------------------------------------------------------------------------------- /frontend/src/components/jobs/result-tabs/HhrepidResultsTab.vue: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/components/jobs/result-tabs/HhrepidResultsTab.vue -------------------------------------------------------------------------------- /frontend/src/components/jobs/result-tabs/HmmerResultsTab.vue: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/components/jobs/result-tabs/HmmerResultsTab.vue -------------------------------------------------------------------------------- /frontend/src/components/jobs/result-tabs/ImagesViewTab.vue: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/components/jobs/result-tabs/ImagesViewTab.vue -------------------------------------------------------------------------------- /frontend/src/components/jobs/result-tabs/NGL3DStructureView.vue: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/components/jobs/result-tabs/NGL3DStructureView.vue -------------------------------------------------------------------------------- /frontend/src/components/jobs/result-tabs/PLMBlastResultsTab.vue: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/components/jobs/result-tabs/PLMBlastResultsTab.vue -------------------------------------------------------------------------------- /frontend/src/components/jobs/result-tabs/PatsearchResultsTab.vue: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/components/jobs/result-tabs/PatsearchResultsTab.vue -------------------------------------------------------------------------------- /frontend/src/components/jobs/result-tabs/PlotTab.vue: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/components/jobs/result-tabs/PlotTab.vue -------------------------------------------------------------------------------- /frontend/src/components/jobs/result-tabs/PsiblastResultsTab.vue: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/components/jobs/result-tabs/PsiblastResultsTab.vue -------------------------------------------------------------------------------- /frontend/src/components/jobs/result-tabs/Quick2DResultsTab.vue: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/components/jobs/result-tabs/Quick2DResultsTab.vue -------------------------------------------------------------------------------- /frontend/src/components/jobs/result-tabs/Seq2IDResultsTab.vue: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/components/jobs/result-tabs/Seq2IDResultsTab.vue -------------------------------------------------------------------------------- /frontend/src/components/jobs/result-tabs/TemplateSelectionViewTab.vue: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/components/jobs/result-tabs/TemplateSelectionViewTab.vue -------------------------------------------------------------------------------- /frontend/src/components/jobs/result-tabs/TprpredResultsTab.vue: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/components/jobs/result-tabs/TprpredResultsTab.vue -------------------------------------------------------------------------------- /frontend/src/components/jobs/result-tabs/TreeTab.vue: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/components/jobs/result-tabs/TreeTab.vue -------------------------------------------------------------------------------- /frontend/src/components/jobs/result-tabs/sections/HitListTable.vue: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/components/jobs/result-tabs/sections/HitListTable.vue -------------------------------------------------------------------------------- /frontend/src/components/jobs/result-tabs/sections/HitMap.vue: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/components/jobs/result-tabs/sections/HitMap.vue -------------------------------------------------------------------------------- /frontend/src/components/jobs/state-tabs/JobErrorTab.vue: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/components/jobs/state-tabs/JobErrorTab.vue -------------------------------------------------------------------------------- /frontend/src/components/jobs/state-tabs/JobLimitReachedTab.vue: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/components/jobs/state-tabs/JobLimitReachedTab.vue -------------------------------------------------------------------------------- /frontend/src/components/jobs/state-tabs/JobPendingTab.vue: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/components/jobs/state-tabs/JobPendingTab.vue -------------------------------------------------------------------------------- /frontend/src/components/jobs/state-tabs/JobPreparedTab.vue: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/components/jobs/state-tabs/JobPreparedTab.vue -------------------------------------------------------------------------------- /frontend/src/components/jobs/state-tabs/JobQueuedTab.vue: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/components/jobs/state-tabs/JobQueuedTab.vue -------------------------------------------------------------------------------- /frontend/src/components/jobs/state-tabs/JobRunningTab.vue: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/components/jobs/state-tabs/JobRunningTab.vue -------------------------------------------------------------------------------- /frontend/src/components/jobs/state-tabs/JobSubmittedTab.vue: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/components/jobs/state-tabs/JobSubmittedTab.vue -------------------------------------------------------------------------------- /frontend/src/components/modals/AuthModal.vue: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/components/modals/AuthModal.vue -------------------------------------------------------------------------------- /frontend/src/components/modals/BaseModal.vue: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/components/modals/BaseModal.vue -------------------------------------------------------------------------------- /frontend/src/components/modals/FooterLinkModal.vue: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/components/modals/FooterLinkModal.vue -------------------------------------------------------------------------------- /frontend/src/components/modals/ForwardingModal.vue: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/components/modals/ForwardingModal.vue -------------------------------------------------------------------------------- /frontend/src/components/modals/HelpModal.vue: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/components/modals/HelpModal.vue -------------------------------------------------------------------------------- /frontend/src/components/modals/ResetPasswordModal.vue: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/components/modals/ResetPasswordModal.vue -------------------------------------------------------------------------------- /frontend/src/components/modals/TemplateAlignmentModal.vue: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/components/modals/TemplateAlignmentModal.vue -------------------------------------------------------------------------------- /frontend/src/components/modals/TemplateStructureModal.vue: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/components/modals/TemplateStructureModal.vue -------------------------------------------------------------------------------- /frontend/src/components/modals/UpdatesModal.vue: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/components/modals/UpdatesModal.vue -------------------------------------------------------------------------------- /frontend/src/components/modals/VerificationModal.vue: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/components/modals/VerificationModal.vue -------------------------------------------------------------------------------- /frontend/src/components/navigation/Footer.vue: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/components/navigation/Footer.vue -------------------------------------------------------------------------------- /frontend/src/components/navigation/Header.vue: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/components/navigation/Header.vue -------------------------------------------------------------------------------- /frontend/src/components/navigation/MaintenanceMessage.vue: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/components/navigation/MaintenanceMessage.vue -------------------------------------------------------------------------------- /frontend/src/components/navigation/NavBar.vue: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/components/navigation/NavBar.vue -------------------------------------------------------------------------------- /frontend/src/components/navigation/OffscreenMenu.vue: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/components/navigation/OffscreenMenu.vue -------------------------------------------------------------------------------- /frontend/src/components/navigation/TopNavBar.vue: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/components/navigation/TopNavBar.vue -------------------------------------------------------------------------------- /frontend/src/components/sidebar/JobList.vue: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/components/sidebar/JobList.vue -------------------------------------------------------------------------------- /frontend/src/components/sidebar/SideBar.vue: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/components/sidebar/SideBar.vue -------------------------------------------------------------------------------- /frontend/src/components/tools/AlignmentViewer.vue: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/components/tools/AlignmentViewer.vue -------------------------------------------------------------------------------- /frontend/src/components/tools/ToolView.vue: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/components/tools/ToolView.vue -------------------------------------------------------------------------------- /frontend/src/components/tools/parameters/BooleanParameter.vue: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/components/tools/parameters/BooleanParameter.vue -------------------------------------------------------------------------------- /frontend/src/components/tools/parameters/CustomJobIdInput.vue: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/components/tools/parameters/CustomJobIdInput.vue -------------------------------------------------------------------------------- /frontend/src/components/tools/parameters/EmailNotificationSwitch.vue: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/components/tools/parameters/EmailNotificationSwitch.vue -------------------------------------------------------------------------------- /frontend/src/components/tools/parameters/JobPublicToggle.vue: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/components/tools/parameters/JobPublicToggle.vue -------------------------------------------------------------------------------- /frontend/src/components/tools/parameters/NumberParameter.vue: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/components/tools/parameters/NumberParameter.vue -------------------------------------------------------------------------------- /frontend/src/components/tools/parameters/Section.vue: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/components/tools/parameters/Section.vue -------------------------------------------------------------------------------- /frontend/src/components/tools/parameters/SelectParameter.vue: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/components/tools/parameters/SelectParameter.vue -------------------------------------------------------------------------------- /frontend/src/components/tools/parameters/TextAreaParameter.vue: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/components/tools/parameters/TextAreaParameter.vue -------------------------------------------------------------------------------- /frontend/src/components/tools/parameters/TextAreaSubComponent.vue: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/components/tools/parameters/TextAreaSubComponent.vue -------------------------------------------------------------------------------- /frontend/src/components/tools/parameters/TextInputParameter.vue: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/components/tools/parameters/TextInputParameter.vue -------------------------------------------------------------------------------- /frontend/src/components/tools/parameters/special/AlignmentViewerView.vue: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/components/tools/parameters/special/AlignmentViewerView.vue -------------------------------------------------------------------------------- /frontend/src/components/tools/parameters/special/HHpredSelectsParameter.vue: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/components/tools/parameters/special/HHpredSelectsParameter.vue -------------------------------------------------------------------------------- /frontend/src/components/tools/parameters/special/ModellerParameter.vue: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/components/tools/parameters/special/ModellerParameter.vue -------------------------------------------------------------------------------- /frontend/src/components/tools/parameters/special/ReformatView.vue: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/components/tools/parameters/special/ReformatView.vue -------------------------------------------------------------------------------- /frontend/src/components/utils/Accordion.vue: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/components/utils/Accordion.vue -------------------------------------------------------------------------------- /frontend/src/components/utils/IntersectionObserver.vue: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/components/utils/IntersectionObserver.vue -------------------------------------------------------------------------------- /frontend/src/components/utils/Loading.vue: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/components/utils/Loading.vue -------------------------------------------------------------------------------- /frontend/src/components/utils/LoadingView.vue: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/components/utils/LoadingView.vue -------------------------------------------------------------------------------- /frontend/src/components/utils/LoadingWrapper.vue: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/components/utils/LoadingWrapper.vue -------------------------------------------------------------------------------- /frontend/src/components/utils/NotFoundView.vue: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/components/utils/NotFoundView.vue -------------------------------------------------------------------------------- /frontend/src/components/utils/ScrollTopButton.vue: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/components/utils/ScrollTopButton.vue -------------------------------------------------------------------------------- /frontend/src/components/utils/TimeoutView.vue: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/components/utils/TimeoutView.vue -------------------------------------------------------------------------------- /frontend/src/conf/FrontendTools.ts: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/conf/FrontendTools.ts -------------------------------------------------------------------------------- /frontend/src/conf/ToolSections.ts: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/conf/ToolSections.ts -------------------------------------------------------------------------------- /frontend/src/i18n/index.ts: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/i18n/index.ts -------------------------------------------------------------------------------- /frontend/src/i18n/lang/countries.ts: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/i18n/lang/countries.ts -------------------------------------------------------------------------------- /frontend/src/i18n/lang/de.ts: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/i18n/lang/de.ts -------------------------------------------------------------------------------- /frontend/src/i18n/lang/en.ts: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/i18n/lang/en.ts -------------------------------------------------------------------------------- /frontend/src/i18n/lang/extras/modals/toolHelp/ali2d.ts: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/i18n/lang/extras/modals/toolHelp/ali2d.ts -------------------------------------------------------------------------------- /frontend/src/i18n/lang/extras/modals/toolHelp/aln2plot.ts: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/i18n/lang/extras/modals/toolHelp/aln2plot.ts -------------------------------------------------------------------------------- /frontend/src/i18n/lang/extras/modals/toolHelp/alnviz.ts: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/i18n/lang/extras/modals/toolHelp/alnviz.ts -------------------------------------------------------------------------------- /frontend/src/i18n/lang/extras/modals/toolHelp/ancescon.ts: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/i18n/lang/extras/modals/toolHelp/ancescon.ts -------------------------------------------------------------------------------- /frontend/src/i18n/lang/extras/modals/toolHelp/backtrans.ts: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/i18n/lang/extras/modals/toolHelp/backtrans.ts -------------------------------------------------------------------------------- /frontend/src/i18n/lang/extras/modals/toolHelp/clans.ts: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/i18n/lang/extras/modals/toolHelp/clans.ts -------------------------------------------------------------------------------- /frontend/src/i18n/lang/extras/modals/toolHelp/clustalo.ts: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/i18n/lang/extras/modals/toolHelp/clustalo.ts -------------------------------------------------------------------------------- /frontend/src/i18n/lang/extras/modals/toolHelp/common.ts: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/i18n/lang/extras/modals/toolHelp/common.ts -------------------------------------------------------------------------------- /frontend/src/i18n/lang/extras/modals/toolHelp/deepcoil.ts: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/i18n/lang/extras/modals/toolHelp/deepcoil.ts -------------------------------------------------------------------------------- /frontend/src/i18n/lang/extras/modals/toolHelp/deepcoil2.ts: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/i18n/lang/extras/modals/toolHelp/deepcoil2.ts -------------------------------------------------------------------------------- /frontend/src/i18n/lang/extras/modals/toolHelp/diamond_deepclust.ts: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/i18n/lang/extras/modals/toolHelp/diamond_deepclust.ts -------------------------------------------------------------------------------- /frontend/src/i18n/lang/extras/modals/toolHelp/hhblits.ts: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/i18n/lang/extras/modals/toolHelp/hhblits.ts -------------------------------------------------------------------------------- /frontend/src/i18n/lang/extras/modals/toolHelp/hhfilter.ts: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/i18n/lang/extras/modals/toolHelp/hhfilter.ts -------------------------------------------------------------------------------- /frontend/src/i18n/lang/extras/modals/toolHelp/hhomp.ts: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/i18n/lang/extras/modals/toolHelp/hhomp.ts -------------------------------------------------------------------------------- /frontend/src/i18n/lang/extras/modals/toolHelp/hhpred.ts: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/i18n/lang/extras/modals/toolHelp/hhpred.ts -------------------------------------------------------------------------------- /frontend/src/i18n/lang/extras/modals/toolHelp/hhpred_manual.ts: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/i18n/lang/extras/modals/toolHelp/hhpred_manual.ts -------------------------------------------------------------------------------- /frontend/src/i18n/lang/extras/modals/toolHelp/hhrepid.ts: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/i18n/lang/extras/modals/toolHelp/hhrepid.ts -------------------------------------------------------------------------------- /frontend/src/i18n/lang/extras/modals/toolHelp/hmmer.ts: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/i18n/lang/extras/modals/toolHelp/hmmer.ts -------------------------------------------------------------------------------- /frontend/src/i18n/lang/extras/modals/toolHelp/kalign.ts: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/i18n/lang/extras/modals/toolHelp/kalign.ts -------------------------------------------------------------------------------- /frontend/src/i18n/lang/extras/modals/toolHelp/mafft.ts: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/i18n/lang/extras/modals/toolHelp/mafft.ts -------------------------------------------------------------------------------- /frontend/src/i18n/lang/extras/modals/toolHelp/marcoil.ts: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/i18n/lang/extras/modals/toolHelp/marcoil.ts -------------------------------------------------------------------------------- /frontend/src/i18n/lang/extras/modals/toolHelp/mmseqs2.ts: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/i18n/lang/extras/modals/toolHelp/mmseqs2.ts -------------------------------------------------------------------------------- /frontend/src/i18n/lang/extras/modals/toolHelp/modeller.ts: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/i18n/lang/extras/modals/toolHelp/modeller.ts -------------------------------------------------------------------------------- /frontend/src/i18n/lang/extras/modals/toolHelp/msaprobs.ts: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/i18n/lang/extras/modals/toolHelp/msaprobs.ts -------------------------------------------------------------------------------- /frontend/src/i18n/lang/extras/modals/toolHelp/muscle.ts: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/i18n/lang/extras/modals/toolHelp/muscle.ts -------------------------------------------------------------------------------- /frontend/src/i18n/lang/extras/modals/toolHelp/patsearch.ts: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/i18n/lang/extras/modals/toolHelp/patsearch.ts -------------------------------------------------------------------------------- /frontend/src/i18n/lang/extras/modals/toolHelp/pcoils.ts: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/i18n/lang/extras/modals/toolHelp/pcoils.ts -------------------------------------------------------------------------------- /frontend/src/i18n/lang/extras/modals/toolHelp/phyml.ts: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/i18n/lang/extras/modals/toolHelp/phyml.ts -------------------------------------------------------------------------------- /frontend/src/i18n/lang/extras/modals/toolHelp/plmblast.ts: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/i18n/lang/extras/modals/toolHelp/plmblast.ts -------------------------------------------------------------------------------- /frontend/src/i18n/lang/extras/modals/toolHelp/psiblast.ts: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/i18n/lang/extras/modals/toolHelp/psiblast.ts -------------------------------------------------------------------------------- /frontend/src/i18n/lang/extras/modals/toolHelp/quick2d.ts: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/i18n/lang/extras/modals/toolHelp/quick2d.ts -------------------------------------------------------------------------------- /frontend/src/i18n/lang/extras/modals/toolHelp/reformat.ts: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/i18n/lang/extras/modals/toolHelp/reformat.ts -------------------------------------------------------------------------------- /frontend/src/i18n/lang/extras/modals/toolHelp/repper.ts: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/i18n/lang/extras/modals/toolHelp/repper.ts -------------------------------------------------------------------------------- /frontend/src/i18n/lang/extras/modals/toolHelp/retseq.ts: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/i18n/lang/extras/modals/toolHelp/retseq.ts -------------------------------------------------------------------------------- /frontend/src/i18n/lang/extras/modals/toolHelp/samcc.ts: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/i18n/lang/extras/modals/toolHelp/samcc.ts -------------------------------------------------------------------------------- /frontend/src/i18n/lang/extras/modals/toolHelp/seq2id.ts: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/i18n/lang/extras/modals/toolHelp/seq2id.ts -------------------------------------------------------------------------------- /frontend/src/i18n/lang/extras/modals/toolHelp/sixframe.ts: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/i18n/lang/extras/modals/toolHelp/sixframe.ts -------------------------------------------------------------------------------- /frontend/src/i18n/lang/extras/modals/toolHelp/tcoffee.ts: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/i18n/lang/extras/modals/toolHelp/tcoffee.ts -------------------------------------------------------------------------------- /frontend/src/i18n/lang/extras/modals/toolHelp/tprpred.ts: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/i18n/lang/extras/modals/toolHelp/tprpred.ts -------------------------------------------------------------------------------- /frontend/src/i18n/lang/help/en.ts: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/i18n/lang/help/en.ts -------------------------------------------------------------------------------- /frontend/src/i18n/lang/modules/auth-en.ts: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/i18n/lang/modules/auth-en.ts -------------------------------------------------------------------------------- /frontend/src/i18n/lang/modules/jobs-en.ts: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/i18n/lang/modules/jobs-en.ts -------------------------------------------------------------------------------- /frontend/src/i18n/lang/modules/tools-en.ts: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/i18n/lang/modules/tools-en.ts -------------------------------------------------------------------------------- /frontend/src/i18n/lang/updates.ts: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/i18n/lang/updates.ts -------------------------------------------------------------------------------- /frontend/src/main.ts: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/main.ts -------------------------------------------------------------------------------- /frontend/src/mixins/ParameterRememberMixin.ts: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/mixins/ParameterRememberMixin.ts -------------------------------------------------------------------------------- /frontend/src/mixins/ResultTabMixin.ts: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/mixins/ResultTabMixin.ts -------------------------------------------------------------------------------- /frontend/src/mixins/SearchResultTabMixin.ts: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/mixins/SearchResultTabMixin.ts -------------------------------------------------------------------------------- /frontend/src/mixins/ToolParameterMixin.ts: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/mixins/ToolParameterMixin.ts -------------------------------------------------------------------------------- /frontend/src/mixins/TourMixin.ts: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/mixins/TourMixin.ts -------------------------------------------------------------------------------- /frontend/src/mixins/hasHTMLTitle.ts: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/mixins/hasHTMLTitle.ts -------------------------------------------------------------------------------- /frontend/src/modules/msa/msa.min.js: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/modules/msa/msa.min.js -------------------------------------------------------------------------------- /frontend/src/modules/notifications/index.ts: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/modules/notifications/index.ts -------------------------------------------------------------------------------- /frontend/src/modules/notifications/types.d.ts: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/modules/notifications/types.d.ts -------------------------------------------------------------------------------- /frontend/src/modules/reformat/formats/A3M.ts: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/modules/reformat/formats/A3M.ts -------------------------------------------------------------------------------- /frontend/src/modules/reformat/formats/CLUSTAL.ts: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/modules/reformat/formats/CLUSTAL.ts -------------------------------------------------------------------------------- /frontend/src/modules/reformat/formats/FASTA.ts: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/modules/reformat/formats/FASTA.ts -------------------------------------------------------------------------------- /frontend/src/modules/reformat/formats/PIR.ts: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/modules/reformat/formats/PIR.ts -------------------------------------------------------------------------------- /frontend/src/modules/reformat/formats/STOCKHOLM.ts: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/modules/reformat/formats/STOCKHOLM.ts -------------------------------------------------------------------------------- /frontend/src/modules/reformat/index.ts: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/modules/reformat/index.ts -------------------------------------------------------------------------------- /frontend/src/modules/reformat/sequenceTypes/DNA.ts: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/modules/reformat/sequenceTypes/DNA.ts -------------------------------------------------------------------------------- /frontend/src/modules/reformat/sequenceTypes/PROTEIN.ts: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/modules/reformat/sequenceTypes/PROTEIN.ts -------------------------------------------------------------------------------- /frontend/src/modules/reformat/sequenceTypes/RNA.ts: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/modules/reformat/sequenceTypes/RNA.ts -------------------------------------------------------------------------------- /frontend/src/modules/reformat/types.ts: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/modules/reformat/types.ts -------------------------------------------------------------------------------- /frontend/src/modules/reformat/utils.ts: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/modules/reformat/utils.ts -------------------------------------------------------------------------------- /frontend/src/modules/title_manager/index.ts: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/modules/title_manager/index.ts -------------------------------------------------------------------------------- /frontend/src/modules/title_manager/types.d.ts: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/modules/title_manager/types.d.ts -------------------------------------------------------------------------------- /frontend/src/router/index.ts: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/router/index.ts -------------------------------------------------------------------------------- /frontend/src/router/routes.ts: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/router/routes.ts -------------------------------------------------------------------------------- /frontend/src/services/AuthService.ts: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/services/AuthService.ts -------------------------------------------------------------------------------- /frontend/src/services/BackendService.ts: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/services/BackendService.ts -------------------------------------------------------------------------------- /frontend/src/services/JobService.ts: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/services/JobService.ts -------------------------------------------------------------------------------- /frontend/src/services/ParameterRememberService.ts: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/services/ParameterRememberService.ts -------------------------------------------------------------------------------- /frontend/src/services/ResultsService.ts: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/services/ResultsService.ts -------------------------------------------------------------------------------- /frontend/src/services/SampleSeqService.ts: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/services/SampleSeqService.ts -------------------------------------------------------------------------------- /frontend/src/services/ToolService.ts: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/services/ToolService.ts -------------------------------------------------------------------------------- /frontend/src/store/types.ts: -------------------------------------------------------------------------------- 1 | -------------------------------------------------------------------------------- /frontend/src/stores/auth.ts: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/stores/auth.ts -------------------------------------------------------------------------------- /frontend/src/stores/index.ts: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/stores/index.ts -------------------------------------------------------------------------------- /frontend/src/stores/jobs.ts: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/stores/jobs.ts -------------------------------------------------------------------------------- /frontend/src/stores/root.ts: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/stores/root.ts -------------------------------------------------------------------------------- /frontend/src/stores/tools.ts: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/stores/tools.ts -------------------------------------------------------------------------------- /frontend/src/transitions/ExpandHeight.vue: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/transitions/ExpandHeight.vue -------------------------------------------------------------------------------- /frontend/src/transitions/VelocityFade.vue: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/transitions/VelocityFade.vue -------------------------------------------------------------------------------- /frontend/src/types/index.d.ts: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/types/index.d.ts -------------------------------------------------------------------------------- /frontend/src/types/shims-tsx.d.ts: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/types/shims-tsx.d.ts -------------------------------------------------------------------------------- /frontend/src/types/shims-vue.d.ts: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/types/shims-vue.d.ts -------------------------------------------------------------------------------- /frontend/src/types/toolkit/admin.ts: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/types/toolkit/admin.ts -------------------------------------------------------------------------------- /frontend/src/types/toolkit/auth.ts: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/types/toolkit/auth.ts -------------------------------------------------------------------------------- /frontend/src/types/toolkit/enums.ts: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/types/toolkit/enums.ts -------------------------------------------------------------------------------- /frontend/src/types/toolkit/jobs.ts: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/types/toolkit/jobs.ts -------------------------------------------------------------------------------- /frontend/src/types/toolkit/results.ts: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/types/toolkit/results.ts -------------------------------------------------------------------------------- /frontend/src/types/toolkit/tools.ts: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/types/toolkit/tools.ts -------------------------------------------------------------------------------- /frontend/src/types/toolkit/utils.ts: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/types/toolkit/utils.ts -------------------------------------------------------------------------------- /frontend/src/types/toolkit/validation.ts: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/types/toolkit/validation.ts -------------------------------------------------------------------------------- /frontend/src/util/EventBus.ts: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/util/EventBus.ts -------------------------------------------------------------------------------- /frontend/src/util/LoggerConfig.ts: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/util/LoggerConfig.ts -------------------------------------------------------------------------------- /frontend/src/util/SequenceUtils.ts: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/util/SequenceUtils.ts -------------------------------------------------------------------------------- /frontend/src/util/Utils.ts: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/util/Utils.ts -------------------------------------------------------------------------------- /frontend/src/util/validation.ts: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/src/util/validation.ts -------------------------------------------------------------------------------- /frontend/tests/unit/components/header/NavBar.spec.ts: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/tests/unit/components/header/NavBar.spec.ts -------------------------------------------------------------------------------- /frontend/tests/unit/components/tools/parameters/BooleanParameter.spec.ts: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/tests/unit/components/tools/parameters/BooleanParameter.spec.ts -------------------------------------------------------------------------------- /frontend/tests/unit/components/tools/parameters/SelectParameter.spec.ts: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/tests/unit/components/tools/parameters/SelectParameter.spec.ts -------------------------------------------------------------------------------- /frontend/tests/unit/mocks/tools.ts: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/tests/unit/mocks/tools.ts -------------------------------------------------------------------------------- /frontend/tests/unit/modules/reformat/formats/CLUSTAL.spec.ts.bk: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/tests/unit/modules/reformat/formats/CLUSTAL.spec.ts.bk -------------------------------------------------------------------------------- /frontend/tests/unit/modules/reformat/formats/FASTA.spec.ts: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/tests/unit/modules/reformat/formats/FASTA.spec.ts -------------------------------------------------------------------------------- /frontend/tests/unit/modules/reformat/formats/PIR.spec.ts: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/tests/unit/modules/reformat/formats/PIR.spec.ts -------------------------------------------------------------------------------- /frontend/tests/unit/modules/reformat/formats/STOCKHOLM.spec.ts: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/tests/unit/modules/reformat/formats/STOCKHOLM.spec.ts -------------------------------------------------------------------------------- /frontend/tests/unit/modules/reformat/reformat.spec.ts: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/tests/unit/modules/reformat/reformat.spec.ts -------------------------------------------------------------------------------- /frontend/tests/unit/modules/reformat/sequenceTypes/PROTEIN.ts: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/tests/unit/modules/reformat/sequenceTypes/PROTEIN.ts -------------------------------------------------------------------------------- /frontend/tsconfig.json: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/tsconfig.json -------------------------------------------------------------------------------- /frontend/vite.config.js: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/vite.config.js -------------------------------------------------------------------------------- /frontend/yarn.lock: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/frontend/yarn.lock -------------------------------------------------------------------------------- /lib/Psiblast_add_links.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/lib/Psiblast_add_links.py -------------------------------------------------------------------------------- /lib/generateAlignment.sh: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/lib/generateAlignment.sh -------------------------------------------------------------------------------- /lib/hmmer2json.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/lib/hmmer2json.py -------------------------------------------------------------------------------- /lib/manipulate_json.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/lib/manipulate_json.py -------------------------------------------------------------------------------- /lib/parse_BLAST_HTML.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/lib/parse_BLAST_HTML.py -------------------------------------------------------------------------------- /lib/retrieveAlnEval.sh: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/lib/retrieveAlnEval.sh -------------------------------------------------------------------------------- /lib/retrieveFullSeq.sh: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/lib/retrieveFullSeq.sh -------------------------------------------------------------------------------- /lib/retrieveFullSeqHHblits.sh: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/lib/retrieveFullSeqHHblits.sh -------------------------------------------------------------------------------- /lib/templateAlignment.sh: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/lib/templateAlignment.sh -------------------------------------------------------------------------------- /lib/templateAlignmentHHblits.sh: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/lib/templateAlignmentHHblits.sh -------------------------------------------------------------------------------- /lib/templateAlignmentHHomp.sh: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/lib/templateAlignmentHHomp.sh -------------------------------------------------------------------------------- /modules/auth/src/main/scala/de/proteinevolution/auth/AuthRouter.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/auth/src/main/scala/de/proteinevolution/auth/AuthRouter.scala -------------------------------------------------------------------------------- /modules/auth/src/main/scala/de/proteinevolution/auth/controllers/AuthController.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/auth/src/main/scala/de/proteinevolution/auth/controllers/AuthController.scala -------------------------------------------------------------------------------- /modules/auth/src/main/scala/de/proteinevolution/auth/controllers/ValidationController.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/auth/src/main/scala/de/proteinevolution/auth/controllers/ValidationController.scala -------------------------------------------------------------------------------- /modules/auth/src/main/scala/de/proteinevolution/auth/controllers/VerificationController.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/auth/src/main/scala/de/proteinevolution/auth/controllers/VerificationController.scala -------------------------------------------------------------------------------- /modules/auth/src/main/scala/de/proteinevolution/auth/dao/UserDao.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/auth/src/main/scala/de/proteinevolution/auth/dao/UserDao.scala -------------------------------------------------------------------------------- /modules/auth/src/main/scala/de/proteinevolution/auth/models/FormDefinitions.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/auth/src/main/scala/de/proteinevolution/auth/models/FormDefinitions.scala -------------------------------------------------------------------------------- /modules/auth/src/main/scala/de/proteinevolution/auth/models/JSONTemplate.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/auth/src/main/scala/de/proteinevolution/auth/models/JSONTemplate.scala -------------------------------------------------------------------------------- /modules/auth/src/main/scala/de/proteinevolution/auth/models/MailTemplate.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/auth/src/main/scala/de/proteinevolution/auth/models/MailTemplate.scala -------------------------------------------------------------------------------- /modules/auth/src/main/scala/de/proteinevolution/auth/models/Session.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/auth/src/main/scala/de/proteinevolution/auth/models/Session.scala -------------------------------------------------------------------------------- /modules/auth/src/main/scala/de/proteinevolution/auth/services/UserSessionService.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/auth/src/main/scala/de/proteinevolution/auth/services/UserSessionService.scala -------------------------------------------------------------------------------- /modules/auth/src/main/scala/de/proteinevolution/auth/util/UserAction.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/auth/src/main/scala/de/proteinevolution/auth/util/UserAction.scala -------------------------------------------------------------------------------- /modules/auth/src/main/scala/de/proteinevolution/auth/util/UserRequest.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/auth/src/main/scala/de/proteinevolution/auth/util/UserRequest.scala -------------------------------------------------------------------------------- /modules/backend/src/main/scala/de/proteinevolution/backend/BackendRouter.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/backend/src/main/scala/de/proteinevolution/backend/BackendRouter.scala -------------------------------------------------------------------------------- /modules/backend/src/main/scala/de/proteinevolution/backend/actors/DatabaseMonitor.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/backend/src/main/scala/de/proteinevolution/backend/actors/DatabaseMonitor.scala -------------------------------------------------------------------------------- /modules/backend/src/main/scala/de/proteinevolution/backend/controllers/BackendController.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/backend/src/main/scala/de/proteinevolution/backend/controllers/BackendController.scala -------------------------------------------------------------------------------- /modules/backend/src/main/scala/de/proteinevolution/backend/dao/BackendDao.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/backend/src/main/scala/de/proteinevolution/backend/dao/BackendDao.scala -------------------------------------------------------------------------------- /modules/base/src/main/scala/de/proteinevolution/base/ToolkitRouter.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/base/src/main/scala/de/proteinevolution/base/ToolkitRouter.scala -------------------------------------------------------------------------------- /modules/base/src/main/scala/de/proteinevolution/base/controllers/ToolkitController.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/base/src/main/scala/de/proteinevolution/base/controllers/ToolkitController.scala -------------------------------------------------------------------------------- /modules/base/src/main/scala/de/proteinevolution/base/helpers/ToolkitTypes.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/base/src/main/scala/de/proteinevolution/base/helpers/ToolkitTypes.scala -------------------------------------------------------------------------------- /modules/cluster-api/src/main/scala/de/proteinevolution/cluster/api/Polling.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/cluster-api/src/main/scala/de/proteinevolution/cluster/api/Polling.scala -------------------------------------------------------------------------------- /modules/cluster-api/src/main/scala/de/proteinevolution/cluster/api/QStat.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/cluster-api/src/main/scala/de/proteinevolution/cluster/api/QStat.scala -------------------------------------------------------------------------------- /modules/cluster-api/src/main/scala/de/proteinevolution/cluster/api/Qdel.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/cluster-api/src/main/scala/de/proteinevolution/cluster/api/Qdel.scala -------------------------------------------------------------------------------- /modules/cluster-api/src/main/scala/de/proteinevolution/cluster/api/SGELoad.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/cluster-api/src/main/scala/de/proteinevolution/cluster/api/SGELoad.scala -------------------------------------------------------------------------------- /modules/cluster/src/main/scala/de/proteinevolution/cluster/ClusterModule.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/cluster/src/main/scala/de/proteinevolution/cluster/ClusterModule.scala -------------------------------------------------------------------------------- /modules/cluster/src/main/scala/de/proteinevolution/cluster/ClusterSubscriber.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/cluster/src/main/scala/de/proteinevolution/cluster/ClusterSubscriber.scala -------------------------------------------------------------------------------- /modules/cluster/src/main/scala/de/proteinevolution/cluster/QstatStream.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/cluster/src/main/scala/de/proteinevolution/cluster/QstatStream.scala -------------------------------------------------------------------------------- /modules/common/src/main/scala/de/proteinevolution/common/models/ConstantsV2.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/common/src/main/scala/de/proteinevolution/common/models/ConstantsV2.scala -------------------------------------------------------------------------------- /modules/common/src/main/scala/de/proteinevolution/common/models/ToolName.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/common/src/main/scala/de/proteinevolution/common/models/ToolName.scala -------------------------------------------------------------------------------- /modules/common/src/main/scala/de/proteinevolution/common/models/database/jobs/JobState.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/common/src/main/scala/de/proteinevolution/common/models/database/jobs/JobState.scala -------------------------------------------------------------------------------- /modules/common/src/main/scala/de/proteinevolution/common/models/forwarding/ForwardModalOptions.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/common/src/main/scala/de/proteinevolution/common/models/forwarding/ForwardModalOptions.scala -------------------------------------------------------------------------------- /modules/common/src/main/scala/de/proteinevolution/common/models/forwarding/ForwardingError.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/common/src/main/scala/de/proteinevolution/common/models/forwarding/ForwardingError.scala -------------------------------------------------------------------------------- /modules/common/src/main/scala/de/proteinevolution/common/models/util/ZonedDateTimeHelper.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/common/src/main/scala/de/proteinevolution/common/models/util/ZonedDateTimeHelper.scala -------------------------------------------------------------------------------- /modules/common/src/main/scala/de/proteinevolution/common/parsers/FASTA.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/common/src/main/scala/de/proteinevolution/common/parsers/FASTA.scala -------------------------------------------------------------------------------- /modules/jobs/src/main/scala/de/proteinevolution/jobs/JobsRouter.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/jobs/src/main/scala/de/proteinevolution/jobs/JobsRouter.scala -------------------------------------------------------------------------------- /modules/jobs/src/main/scala/de/proteinevolution/jobs/actors/JobActor.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/jobs/src/main/scala/de/proteinevolution/jobs/actors/JobActor.scala -------------------------------------------------------------------------------- /modules/jobs/src/main/scala/de/proteinevolution/jobs/controllers/ClusterApiController.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/jobs/src/main/scala/de/proteinevolution/jobs/controllers/ClusterApiController.scala -------------------------------------------------------------------------------- /modules/jobs/src/main/scala/de/proteinevolution/jobs/controllers/FileController.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/jobs/src/main/scala/de/proteinevolution/jobs/controllers/FileController.scala -------------------------------------------------------------------------------- /modules/jobs/src/main/scala/de/proteinevolution/jobs/controllers/HHController.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/jobs/src/main/scala/de/proteinevolution/jobs/controllers/HHController.scala -------------------------------------------------------------------------------- /modules/jobs/src/main/scala/de/proteinevolution/jobs/controllers/JobGetController.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/jobs/src/main/scala/de/proteinevolution/jobs/controllers/JobGetController.scala -------------------------------------------------------------------------------- /modules/jobs/src/main/scala/de/proteinevolution/jobs/controllers/ProcessController.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/jobs/src/main/scala/de/proteinevolution/jobs/controllers/ProcessController.scala -------------------------------------------------------------------------------- /modules/jobs/src/main/scala/de/proteinevolution/jobs/controllers/ResultsController.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/jobs/src/main/scala/de/proteinevolution/jobs/controllers/ResultsController.scala -------------------------------------------------------------------------------- /modules/jobs/src/main/scala/de/proteinevolution/jobs/controllers/SubmissionController.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/jobs/src/main/scala/de/proteinevolution/jobs/controllers/SubmissionController.scala -------------------------------------------------------------------------------- /modules/jobs/src/main/scala/de/proteinevolution/jobs/dao/JobDao.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/jobs/src/main/scala/de/proteinevolution/jobs/dao/JobDao.scala -------------------------------------------------------------------------------- /modules/jobs/src/main/scala/de/proteinevolution/jobs/db/ResultFileAccessor.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/jobs/src/main/scala/de/proteinevolution/jobs/db/ResultFileAccessor.scala -------------------------------------------------------------------------------- /modules/jobs/src/main/scala/de/proteinevolution/jobs/models/ForwardingData.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/jobs/src/main/scala/de/proteinevolution/jobs/models/ForwardingData.scala -------------------------------------------------------------------------------- /modules/jobs/src/main/scala/de/proteinevolution/jobs/models/HHContext.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/jobs/src/main/scala/de/proteinevolution/jobs/models/HHContext.scala -------------------------------------------------------------------------------- /modules/jobs/src/main/scala/de/proteinevolution/jobs/models/Job.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/jobs/src/main/scala/de/proteinevolution/jobs/models/Job.scala -------------------------------------------------------------------------------- /modules/jobs/src/main/scala/de/proteinevolution/jobs/models/JobClusterData.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/jobs/src/main/scala/de/proteinevolution/jobs/models/JobClusterData.scala -------------------------------------------------------------------------------- /modules/jobs/src/main/scala/de/proteinevolution/jobs/models/JobHashError.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/jobs/src/main/scala/de/proteinevolution/jobs/models/JobHashError.scala -------------------------------------------------------------------------------- /modules/jobs/src/main/scala/de/proteinevolution/jobs/models/JobSubmitError.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/jobs/src/main/scala/de/proteinevolution/jobs/models/JobSubmitError.scala -------------------------------------------------------------------------------- /modules/jobs/src/main/scala/de/proteinevolution/jobs/models/ResubmitData.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/jobs/src/main/scala/de/proteinevolution/jobs/models/ResubmitData.scala -------------------------------------------------------------------------------- /modules/jobs/src/main/scala/de/proteinevolution/jobs/models/ResultsForm.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/jobs/src/main/scala/de/proteinevolution/jobs/models/ResultsForm.scala -------------------------------------------------------------------------------- /modules/jobs/src/main/scala/de/proteinevolution/jobs/results/Accession.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/jobs/src/main/scala/de/proteinevolution/jobs/results/Accession.scala -------------------------------------------------------------------------------- /modules/jobs/src/main/scala/de/proteinevolution/jobs/results/AlignmentItem.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/jobs/src/main/scala/de/proteinevolution/jobs/results/AlignmentItem.scala -------------------------------------------------------------------------------- /modules/jobs/src/main/scala/de/proteinevolution/jobs/results/AlignmentResult.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/jobs/src/main/scala/de/proteinevolution/jobs/results/AlignmentResult.scala -------------------------------------------------------------------------------- /modules/jobs/src/main/scala/de/proteinevolution/jobs/results/General.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/jobs/src/main/scala/de/proteinevolution/jobs/results/General.scala -------------------------------------------------------------------------------- /modules/jobs/src/main/scala/de/proteinevolution/jobs/results/HHBlitsHSP.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/jobs/src/main/scala/de/proteinevolution/jobs/results/HHBlitsHSP.scala -------------------------------------------------------------------------------- /modules/jobs/src/main/scala/de/proteinevolution/jobs/results/HHBlitsInfo.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/jobs/src/main/scala/de/proteinevolution/jobs/results/HHBlitsInfo.scala -------------------------------------------------------------------------------- /modules/jobs/src/main/scala/de/proteinevolution/jobs/results/HHBlitsQuery.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/jobs/src/main/scala/de/proteinevolution/jobs/results/HHBlitsQuery.scala -------------------------------------------------------------------------------- /modules/jobs/src/main/scala/de/proteinevolution/jobs/results/HHBlitsResult.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/jobs/src/main/scala/de/proteinevolution/jobs/results/HHBlitsResult.scala -------------------------------------------------------------------------------- /modules/jobs/src/main/scala/de/proteinevolution/jobs/results/HHBlitsTemplate.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/jobs/src/main/scala/de/proteinevolution/jobs/results/HHBlitsTemplate.scala -------------------------------------------------------------------------------- /modules/jobs/src/main/scala/de/proteinevolution/jobs/results/HHPredHSP.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/jobs/src/main/scala/de/proteinevolution/jobs/results/HHPredHSP.scala -------------------------------------------------------------------------------- /modules/jobs/src/main/scala/de/proteinevolution/jobs/results/HHPredInfo.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/jobs/src/main/scala/de/proteinevolution/jobs/results/HHPredInfo.scala -------------------------------------------------------------------------------- /modules/jobs/src/main/scala/de/proteinevolution/jobs/results/HHPredQuery.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/jobs/src/main/scala/de/proteinevolution/jobs/results/HHPredQuery.scala -------------------------------------------------------------------------------- /modules/jobs/src/main/scala/de/proteinevolution/jobs/results/HHPredResult.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/jobs/src/main/scala/de/proteinevolution/jobs/results/HHPredResult.scala -------------------------------------------------------------------------------- /modules/jobs/src/main/scala/de/proteinevolution/jobs/results/HHPredTemplate.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/jobs/src/main/scala/de/proteinevolution/jobs/results/HHPredTemplate.scala -------------------------------------------------------------------------------- /modules/jobs/src/main/scala/de/proteinevolution/jobs/results/HHompHSP.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/jobs/src/main/scala/de/proteinevolution/jobs/results/HHompHSP.scala -------------------------------------------------------------------------------- /modules/jobs/src/main/scala/de/proteinevolution/jobs/results/HHompInfo.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/jobs/src/main/scala/de/proteinevolution/jobs/results/HHompInfo.scala -------------------------------------------------------------------------------- /modules/jobs/src/main/scala/de/proteinevolution/jobs/results/HHompQuery.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/jobs/src/main/scala/de/proteinevolution/jobs/results/HHompQuery.scala -------------------------------------------------------------------------------- /modules/jobs/src/main/scala/de/proteinevolution/jobs/results/HHompResult.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/jobs/src/main/scala/de/proteinevolution/jobs/results/HHompResult.scala -------------------------------------------------------------------------------- /modules/jobs/src/main/scala/de/proteinevolution/jobs/results/HHompTemplate.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/jobs/src/main/scala/de/proteinevolution/jobs/results/HHompTemplate.scala -------------------------------------------------------------------------------- /modules/jobs/src/main/scala/de/proteinevolution/jobs/results/HSP.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/jobs/src/main/scala/de/proteinevolution/jobs/results/HSP.scala -------------------------------------------------------------------------------- /modules/jobs/src/main/scala/de/proteinevolution/jobs/results/HmmerHSP.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/jobs/src/main/scala/de/proteinevolution/jobs/results/HmmerHSP.scala -------------------------------------------------------------------------------- /modules/jobs/src/main/scala/de/proteinevolution/jobs/results/HmmerResult.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/jobs/src/main/scala/de/proteinevolution/jobs/results/HmmerResult.scala -------------------------------------------------------------------------------- /modules/jobs/src/main/scala/de/proteinevolution/jobs/results/LinkUtil.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/jobs/src/main/scala/de/proteinevolution/jobs/results/LinkUtil.scala -------------------------------------------------------------------------------- /modules/jobs/src/main/scala/de/proteinevolution/jobs/results/PLMBlastHSP.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/jobs/src/main/scala/de/proteinevolution/jobs/results/PLMBlastHSP.scala -------------------------------------------------------------------------------- /modules/jobs/src/main/scala/de/proteinevolution/jobs/results/PLMBlastResult.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/jobs/src/main/scala/de/proteinevolution/jobs/results/PLMBlastResult.scala -------------------------------------------------------------------------------- /modules/jobs/src/main/scala/de/proteinevolution/jobs/results/PSIBlastHSP.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/jobs/src/main/scala/de/proteinevolution/jobs/results/PSIBlastHSP.scala -------------------------------------------------------------------------------- /modules/jobs/src/main/scala/de/proteinevolution/jobs/results/PSIBlastResult.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/jobs/src/main/scala/de/proteinevolution/jobs/results/PSIBlastResult.scala -------------------------------------------------------------------------------- /modules/jobs/src/main/scala/de/proteinevolution/jobs/results/PatSearchResult.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/jobs/src/main/scala/de/proteinevolution/jobs/results/PatSearchResult.scala -------------------------------------------------------------------------------- /modules/jobs/src/main/scala/de/proteinevolution/jobs/results/Quick2DResult.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/jobs/src/main/scala/de/proteinevolution/jobs/results/Quick2DResult.scala -------------------------------------------------------------------------------- /modules/jobs/src/main/scala/de/proteinevolution/jobs/results/SearchResult.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/jobs/src/main/scala/de/proteinevolution/jobs/results/SearchResult.scala -------------------------------------------------------------------------------- /modules/jobs/src/main/scala/de/proteinevolution/jobs/results/TPRPredResult.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/jobs/src/main/scala/de/proteinevolution/jobs/results/TPRPredResult.scala -------------------------------------------------------------------------------- /modules/jobs/src/main/scala/de/proteinevolution/jobs/services/HHService.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/jobs/src/main/scala/de/proteinevolution/jobs/services/HHService.scala -------------------------------------------------------------------------------- /modules/jobs/src/main/scala/de/proteinevolution/jobs/services/JobActorAccess.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/jobs/src/main/scala/de/proteinevolution/jobs/services/JobActorAccess.scala -------------------------------------------------------------------------------- /modules/jobs/src/main/scala/de/proteinevolution/jobs/services/JobDispatcher.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/jobs/src/main/scala/de/proteinevolution/jobs/services/JobDispatcher.scala -------------------------------------------------------------------------------- /modules/jobs/src/main/scala/de/proteinevolution/jobs/services/JobFolderValidation.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/jobs/src/main/scala/de/proteinevolution/jobs/services/JobFolderValidation.scala -------------------------------------------------------------------------------- /modules/jobs/src/main/scala/de/proteinevolution/jobs/services/JobFrontendToolsService.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/jobs/src/main/scala/de/proteinevolution/jobs/services/JobFrontendToolsService.scala -------------------------------------------------------------------------------- /modules/jobs/src/main/scala/de/proteinevolution/jobs/services/JobHashCheckService.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/jobs/src/main/scala/de/proteinevolution/jobs/services/JobHashCheckService.scala -------------------------------------------------------------------------------- /modules/jobs/src/main/scala/de/proteinevolution/jobs/services/JobHasher.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/jobs/src/main/scala/de/proteinevolution/jobs/services/JobHasher.scala -------------------------------------------------------------------------------- /modules/jobs/src/main/scala/de/proteinevolution/jobs/services/JobIdProvider.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/jobs/src/main/scala/de/proteinevolution/jobs/services/JobIdProvider.scala -------------------------------------------------------------------------------- /modules/jobs/src/main/scala/de/proteinevolution/jobs/services/JobResubmitService.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/jobs/src/main/scala/de/proteinevolution/jobs/services/JobResubmitService.scala -------------------------------------------------------------------------------- /modules/jobs/src/main/scala/de/proteinevolution/jobs/services/JobTerminator.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/jobs/src/main/scala/de/proteinevolution/jobs/services/JobTerminator.scala -------------------------------------------------------------------------------- /modules/jobs/src/main/scala/de/proteinevolution/jobs/services/ProcessService.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/jobs/src/main/scala/de/proteinevolution/jobs/services/ProcessService.scala -------------------------------------------------------------------------------- /modules/jobs/src/main/scala/de/proteinevolution/jobs/services/ToolNameGetService.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/jobs/src/main/scala/de/proteinevolution/jobs/services/ToolNameGetService.scala -------------------------------------------------------------------------------- /modules/message/src/main/scala/de/proteinevolution/message/MessageRouter.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/message/src/main/scala/de/proteinevolution/message/MessageRouter.scala -------------------------------------------------------------------------------- /modules/message/src/main/scala/de/proteinevolution/message/actors/WebSocketActor.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/message/src/main/scala/de/proteinevolution/message/actors/WebSocketActor.scala -------------------------------------------------------------------------------- /modules/message/src/main/scala/de/proteinevolution/message/controllers/MessageController.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/message/src/main/scala/de/proteinevolution/message/controllers/MessageController.scala -------------------------------------------------------------------------------- /modules/message/src/main/scala/de/proteinevolution/message/helpers/CirceFlowTransformer.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/message/src/main/scala/de/proteinevolution/message/helpers/CirceFlowTransformer.scala -------------------------------------------------------------------------------- /modules/migrations/src/main/java/de/proteinevolution/migrations/changelogs/DatabaseChangelog.java: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/migrations/src/main/java/de/proteinevolution/migrations/changelogs/DatabaseChangelog.java -------------------------------------------------------------------------------- /modules/migrations/src/main/scala/de/proteinevolution/migrations/services/MongobeeRunner.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/migrations/src/main/scala/de/proteinevolution/migrations/services/MongobeeRunner.scala -------------------------------------------------------------------------------- /modules/statistics/src/main/scala/de/proteinevolution/statistics/DatedToolStats.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/statistics/src/main/scala/de/proteinevolution/statistics/DatedToolStats.scala -------------------------------------------------------------------------------- /modules/statistics/src/main/scala/de/proteinevolution/statistics/JobEvent.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/statistics/src/main/scala/de/proteinevolution/statistics/JobEvent.scala -------------------------------------------------------------------------------- /modules/statistics/src/main/scala/de/proteinevolution/statistics/JobEventLog.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/statistics/src/main/scala/de/proteinevolution/statistics/JobEventLog.scala -------------------------------------------------------------------------------- /modules/statistics/src/main/scala/de/proteinevolution/statistics/StatisticsObject.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/statistics/src/main/scala/de/proteinevolution/statistics/StatisticsObject.scala -------------------------------------------------------------------------------- /modules/statistics/src/main/scala/de/proteinevolution/statistics/ToolStatistic.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/statistics/src/main/scala/de/proteinevolution/statistics/ToolStatistic.scala -------------------------------------------------------------------------------- /modules/statistics/src/main/scala/de/proteinevolution/statistics/ToolStatisticCollection.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/statistics/src/main/scala/de/proteinevolution/statistics/ToolStatisticCollection.scala -------------------------------------------------------------------------------- /modules/statistics/src/main/scala/de/proteinevolution/statistics/UserStatistic.scala: -------------------------------------------------------------------------------- 1 | -------------------------------------------------------------------------------- /modules/tel/src/main/scala/de/proteinevolution/tel/Observer.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/tel/src/main/scala/de/proteinevolution/tel/Observer.scala -------------------------------------------------------------------------------- /modules/tel/src/main/scala/de/proteinevolution/tel/TEL.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/tel/src/main/scala/de/proteinevolution/tel/TEL.scala -------------------------------------------------------------------------------- /modules/tel/src/main/scala/de/proteinevolution/tel/TELConstants.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/tel/src/main/scala/de/proteinevolution/tel/TELConstants.scala -------------------------------------------------------------------------------- /modules/tel/src/main/scala/de/proteinevolution/tel/TELProvider.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/tel/src/main/scala/de/proteinevolution/tel/TELProvider.scala -------------------------------------------------------------------------------- /modules/tel/src/main/scala/de/proteinevolution/tel/TELRegex.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/tel/src/main/scala/de/proteinevolution/tel/TELRegex.scala -------------------------------------------------------------------------------- /modules/tel/src/main/scala/de/proteinevolution/tel/execution/ExecutionContext.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/tel/src/main/scala/de/proteinevolution/tel/execution/ExecutionContext.scala -------------------------------------------------------------------------------- /modules/tel/src/main/scala/de/proteinevolution/tel/execution/WrapperExecutionFactory.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/tel/src/main/scala/de/proteinevolution/tel/execution/WrapperExecutionFactory.scala -------------------------------------------------------------------------------- /modules/tel/src/main/scala/de/proteinevolution/tel/param/Implicits.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/tel/src/main/scala/de/proteinevolution/tel/param/Implicits.scala -------------------------------------------------------------------------------- /modules/tel/src/main/scala/de/proteinevolution/tel/param/Param.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/tel/src/main/scala/de/proteinevolution/tel/param/Param.scala -------------------------------------------------------------------------------- /modules/tel/src/main/scala/de/proteinevolution/tel/param/ParamCollector.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/tel/src/main/scala/de/proteinevolution/tel/param/ParamCollector.scala -------------------------------------------------------------------------------- /modules/tel/src/main/scala/de/proteinevolution/tel/param/ParamFile.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/tel/src/main/scala/de/proteinevolution/tel/param/ParamFile.scala -------------------------------------------------------------------------------- /modules/tel/src/main/scala/de/proteinevolution/tel/param/Params.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/tel/src/main/scala/de/proteinevolution/tel/param/Params.scala -------------------------------------------------------------------------------- /modules/tel/src/main/scala/de/proteinevolution/tel/runscripts/Parameter.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/tel/src/main/scala/de/proteinevolution/tel/runscripts/Parameter.scala -------------------------------------------------------------------------------- /modules/tel/src/main/scala/de/proteinevolution/tel/runscripts/Runscript.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/tel/src/main/scala/de/proteinevolution/tel/runscripts/Runscript.scala -------------------------------------------------------------------------------- /modules/tel/src/main/scala/de/proteinevolution/tel/runscripts/RunscriptManager.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/tel/src/main/scala/de/proteinevolution/tel/runscripts/RunscriptManager.scala -------------------------------------------------------------------------------- /modules/tools/src/main/scala/de/proteinevolution/tools/ConfigWatcher.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/tools/src/main/scala/de/proteinevolution/tools/ConfigWatcher.scala -------------------------------------------------------------------------------- /modules/tools/src/main/scala/de/proteinevolution/tools/Tool.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/tools/src/main/scala/de/proteinevolution/tools/Tool.scala -------------------------------------------------------------------------------- /modules/tools/src/main/scala/de/proteinevolution/tools/ToolConfig.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/tools/src/main/scala/de/proteinevolution/tools/ToolConfig.scala -------------------------------------------------------------------------------- /modules/tools/src/main/scala/de/proteinevolution/tools/ToolsModule.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/tools/src/main/scala/de/proteinevolution/tools/ToolsModule.scala -------------------------------------------------------------------------------- /modules/tools/src/main/scala/de/proteinevolution/tools/forms/ToolFormSimple.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/tools/src/main/scala/de/proteinevolution/tools/forms/ToolFormSimple.scala -------------------------------------------------------------------------------- /modules/tools/src/main/scala/de/proteinevolution/tools/forms/ValidationParamsForm.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/tools/src/main/scala/de/proteinevolution/tools/forms/ValidationParamsForm.scala -------------------------------------------------------------------------------- /modules/tools/src/main/scala/de/proteinevolution/tools/parameters/ForwardingMode.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/tools/src/main/scala/de/proteinevolution/tools/parameters/ForwardingMode.scala -------------------------------------------------------------------------------- /modules/tools/src/main/scala/de/proteinevolution/tools/parameters/ParamAccess.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/tools/src/main/scala/de/proteinevolution/tools/parameters/ParamAccess.scala -------------------------------------------------------------------------------- /modules/tools/src/main/scala/de/proteinevolution/tools/parameters/Parameter.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/tools/src/main/scala/de/proteinevolution/tools/parameters/Parameter.scala -------------------------------------------------------------------------------- /modules/tools/src/main/scala/de/proteinevolution/tools/parameters/ParameterSection.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/tools/src/main/scala/de/proteinevolution/tools/parameters/ParameterSection.scala -------------------------------------------------------------------------------- /modules/tools/src/main/scala/de/proteinevolution/tools/parameters/TextAreaInputType.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/tools/src/main/scala/de/proteinevolution/tools/parameters/TextAreaInputType.scala -------------------------------------------------------------------------------- /modules/tools/src/main/scala/de/proteinevolution/tools/parameters/ToolParameters.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/tools/src/main/scala/de/proteinevolution/tools/parameters/ToolParameters.scala -------------------------------------------------------------------------------- /modules/ui/src/main/scala/de/proteinevolution/ui/UiRouter.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/ui/src/main/scala/de/proteinevolution/ui/UiRouter.scala -------------------------------------------------------------------------------- /modules/ui/src/main/scala/de/proteinevolution/ui/controllers/UiController.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/ui/src/main/scala/de/proteinevolution/ui/controllers/UiController.scala -------------------------------------------------------------------------------- /modules/user/src/main/scala/de/proteinevolution/user/AccountType.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/user/src/main/scala/de/proteinevolution/user/AccountType.scala -------------------------------------------------------------------------------- /modules/user/src/main/scala/de/proteinevolution/user/Location.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/user/src/main/scala/de/proteinevolution/user/Location.scala -------------------------------------------------------------------------------- /modules/user/src/main/scala/de/proteinevolution/user/SessionData.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/user/src/main/scala/de/proteinevolution/user/SessionData.scala -------------------------------------------------------------------------------- /modules/user/src/main/scala/de/proteinevolution/user/User.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/user/src/main/scala/de/proteinevolution/user/User.scala -------------------------------------------------------------------------------- /modules/user/src/main/scala/de/proteinevolution/user/UserConfig.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/user/src/main/scala/de/proteinevolution/user/UserConfig.scala -------------------------------------------------------------------------------- /modules/user/src/main/scala/de/proteinevolution/user/UserData.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/user/src/main/scala/de/proteinevolution/user/UserData.scala -------------------------------------------------------------------------------- /modules/user/src/main/scala/de/proteinevolution/user/UserToken.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/user/src/main/scala/de/proteinevolution/user/UserToken.scala -------------------------------------------------------------------------------- /modules/util/src/main/scala/de/proteinevolution/util/FNV.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/util/src/main/scala/de/proteinevolution/util/FNV.scala -------------------------------------------------------------------------------- /modules/util/src/main/scala/de/proteinevolution/util/FileLoader.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/util/src/main/scala/de/proteinevolution/util/FileLoader.scala -------------------------------------------------------------------------------- /modules/util/src/main/scala/de/proteinevolution/util/GeoIPInfo.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/util/src/main/scala/de/proteinevolution/util/GeoIPInfo.scala -------------------------------------------------------------------------------- /modules/util/src/main/scala/de/proteinevolution/util/LocationProvider.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/modules/util/src/main/scala/de/proteinevolution/util/LocationProvider.scala -------------------------------------------------------------------------------- /project/Dependencies.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/project/Dependencies.scala -------------------------------------------------------------------------------- /project/Release.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/project/Release.scala -------------------------------------------------------------------------------- /project/Settings.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/project/Settings.scala -------------------------------------------------------------------------------- /project/build.properties: -------------------------------------------------------------------------------- 1 | sbt.version=1.7.2 2 | -------------------------------------------------------------------------------- /project/plugins.sbt: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/project/plugins.sbt -------------------------------------------------------------------------------- /tel/env/environment.sh: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/tel/env/environment.sh -------------------------------------------------------------------------------- /tel/paramspec/LAST_PARAMS_REFRESH: -------------------------------------------------------------------------------- 1 | 25-03-2021 -------------------------------------------------------------------------------- /tel/paramspec/PARAMS: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/tel/paramspec/PARAMS -------------------------------------------------------------------------------- /tel/paramspec/alignmacmode.prop: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/tel/paramspec/alignmacmode.prop -------------------------------------------------------------------------------- /tel/paramspec/alignment_cutoff.prop: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/tel/paramspec/alignment_cutoff.prop -------------------------------------------------------------------------------- /tel/paramspec/alignmode.prop: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/tel/paramspec/alignmode.prop -------------------------------------------------------------------------------- /tel/paramspec/amino_nucl_rel.prop: -------------------------------------------------------------------------------- 1 | t Yes 2 | f No -------------------------------------------------------------------------------- /tel/paramspec/bfactor.prop: -------------------------------------------------------------------------------- 1 | 1 1 2 | 2 2 3 | 5 5 4 | -------------------------------------------------------------------------------- /tel/paramspec/blast_incl_eval.prop: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/tel/paramspec/blast_incl_eval.prop -------------------------------------------------------------------------------- /tel/paramspec/clans_eval.prop: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/tel/paramspec/clans_eval.prop -------------------------------------------------------------------------------- /tel/paramspec/clustering_mode.prop: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/tel/paramspec/clustering_mode.prop -------------------------------------------------------------------------------- /tel/paramspec/codon_table.prop: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/tel/paramspec/codon_table.prop -------------------------------------------------------------------------------- /tel/paramspec/cosine_percentile_cutoff.prop: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/tel/paramspec/cosine_percentile_cutoff.prop -------------------------------------------------------------------------------- /tel/paramspec/desc.prop: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/tel/paramspec/desc.prop -------------------------------------------------------------------------------- /tel/paramspec/diamond_min_aln_cov.prop: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/tel/paramspec/diamond_min_aln_cov.prop -------------------------------------------------------------------------------- /tel/paramspec/diamond_min_seqid.prop: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/tel/paramspec/diamond_min_seqid.prop -------------------------------------------------------------------------------- /tel/paramspec/domain_bound_detection.prop: -------------------------------------------------------------------------------- 1 | 0 no 2 | 1 yes -------------------------------------------------------------------------------- /tel/paramspec/eff_crick_angle.prop: -------------------------------------------------------------------------------- 1 | 1 yes 2 | 0 no -------------------------------------------------------------------------------- /tel/paramspec/eval_tpr.prop: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/tel/paramspec/eval_tpr.prop -------------------------------------------------------------------------------- /tel/paramspec/evalue.prop: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/tel/paramspec/evalue.prop -------------------------------------------------------------------------------- /tel/paramspec/genetic_code.prop: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/tel/paramspec/genetic_code.prop -------------------------------------------------------------------------------- /tel/paramspec/grammar.prop: -------------------------------------------------------------------------------- 1 | pro Prosite_grammar 2 | reg Regular_expression 3 | -------------------------------------------------------------------------------- /tel/paramspec/hhblits_incl_eval.prop: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/tel/paramspec/hhblits_incl_eval.prop -------------------------------------------------------------------------------- /tel/paramspec/hhblitsdb.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/tel/paramspec/hhblitsdb.py -------------------------------------------------------------------------------- /tel/paramspec/hhomp_incl_eval.prop: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/tel/paramspec/hhomp_incl_eval.prop -------------------------------------------------------------------------------- /tel/paramspec/hhompdb.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/tel/paramspec/hhompdb.py -------------------------------------------------------------------------------- /tel/paramspec/hhpred_incl_eval.prop: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/tel/paramspec/hhpred_incl_eval.prop -------------------------------------------------------------------------------- /tel/paramspec/hhsuitedb.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/tel/paramspec/hhsuitedb.py -------------------------------------------------------------------------------- /tel/paramspec/hmmerdb.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/tel/paramspec/hmmerdb.py -------------------------------------------------------------------------------- /tel/paramspec/in_format.prop: -------------------------------------------------------------------------------- 1 | a3m A3M 2 | fas FASTA -------------------------------------------------------------------------------- /tel/paramspec/inc_amino.prop: -------------------------------------------------------------------------------- 1 | fas No 2 | amino Yes -------------------------------------------------------------------------------- /tel/paramspec/inc_nucl.prop: -------------------------------------------------------------------------------- 1 | t Yes 2 | f No -------------------------------------------------------------------------------- /tel/paramspec/macthreshold.prop: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/tel/paramspec/macthreshold.prop -------------------------------------------------------------------------------- /tel/paramspec/matrix.prop: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/tel/paramspec/matrix.prop -------------------------------------------------------------------------------- /tel/paramspec/matrix_marcoil.prop: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/tel/paramspec/matrix_marcoil.prop -------------------------------------------------------------------------------- /tel/paramspec/matrix_phyml.prop: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/tel/paramspec/matrix_phyml.prop -------------------------------------------------------------------------------- /tel/paramspec/max_hhblits_iter.prop: -------------------------------------------------------------------------------- 1 | 0 0 2 | 1 1 -------------------------------------------------------------------------------- /tel/paramspec/maxrounds.prop: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/tel/paramspec/maxrounds.prop -------------------------------------------------------------------------------- /tel/paramspec/merge_hits.prop: -------------------------------------------------------------------------------- 1 | 0 No 2 | 1 Yes -------------------------------------------------------------------------------- /tel/paramspec/merge_iters.prop: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/tel/paramspec/merge_iters.prop -------------------------------------------------------------------------------- /tel/paramspec/min_aln_cov.prop: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/tel/paramspec/min_aln_cov.prop -------------------------------------------------------------------------------- /tel/paramspec/min_cov.prop: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/tel/paramspec/min_cov.prop -------------------------------------------------------------------------------- /tel/paramspec/min_seqid.prop: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/tel/paramspec/min_seqid.prop -------------------------------------------------------------------------------- /tel/paramspec/min_seqid_query.prop: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/tel/paramspec/min_seqid_query.prop -------------------------------------------------------------------------------- /tel/paramspec/msa_gen_max_iter.prop: -------------------------------------------------------------------------------- 1 | 0 0 2 | 1 1 3 | 2 2 4 | 3 3 5 | 4 4 6 | 5 5 7 | 8 8 8 | -------------------------------------------------------------------------------- /tel/paramspec/msa_gen_max_iter_hhrepid.prop: -------------------------------------------------------------------------------- 1 | 0 0 2 | 1 1 3 | 2 2 4 | 3 3 5 | 4 4 -------------------------------------------------------------------------------- /tel/paramspec/msa_gen_method.prop: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/tel/paramspec/msa_gen_method.prop -------------------------------------------------------------------------------- /tel/paramspec/no_replicates.prop: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/tel/paramspec/no_replicates.prop -------------------------------------------------------------------------------- /tel/paramspec/out_format.prop: -------------------------------------------------------------------------------- 1 | a3m A3M 2 | fas FASTA 3 | clu CLUSTAL -------------------------------------------------------------------------------- /tel/paramspec/output_order.prop: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/tel/paramspec/output_order.prop -------------------------------------------------------------------------------- /tel/paramspec/patsearchdb.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/tel/paramspec/patsearchdb.py -------------------------------------------------------------------------------- /tel/paramspec/pcoils_input_mode.prop: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/tel/paramspec/pcoils_input_mode.prop -------------------------------------------------------------------------------- /tel/paramspec/pcoils_matrix.prop: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/tel/paramspec/pcoils_matrix.prop -------------------------------------------------------------------------------- /tel/paramspec/pcoils_weighting.prop: -------------------------------------------------------------------------------- 1 | 1 yes 2 | 0 no -------------------------------------------------------------------------------- /tel/paramspec/plm_aln_mode.prop: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/tel/paramspec/plm_aln_mode.prop -------------------------------------------------------------------------------- /tel/paramspec/plm_gap_ext.prop: -------------------------------------------------------------------------------- 1 | 0 0 2 | 0.5 0.5 3 | 1 1 4 | -------------------------------------------------------------------------------- /tel/paramspec/plmblastdb.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/tel/paramspec/plmblastdb.py -------------------------------------------------------------------------------- /tel/paramspec/pmin.prop: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/tel/paramspec/pmin.prop -------------------------------------------------------------------------------- /tel/paramspec/proteomes.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/tel/paramspec/proteomes.py -------------------------------------------------------------------------------- /tel/paramspec/quick_iters.prop: -------------------------------------------------------------------------------- 1 | 2 2 2 | 3 3 3 | 4 4 4 | 5 5 5 | 8 8 -------------------------------------------------------------------------------- /tel/paramspec/rep_pval_threshold.prop: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/tel/paramspec/rep_pval_threshold.prop -------------------------------------------------------------------------------- /tel/paramspec/repper_input_mode.prop: -------------------------------------------------------------------------------- 1 | 0 Use_input_as_given 2 | 1 Run_PSI-BLAST -------------------------------------------------------------------------------- /tel/paramspec/samcc_periodicity.prop: -------------------------------------------------------------------------------- 1 | 7 7 2 | 11 11 3 | 18 18 -------------------------------------------------------------------------------- /tel/paramspec/score_ss.prop: -------------------------------------------------------------------------------- 1 | 0 no 2 | 2 yes -------------------------------------------------------------------------------- /tel/paramspec/self_aln_pval_threshold.prop: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/tel/paramspec/self_aln_pval_threshold.prop -------------------------------------------------------------------------------- /tel/paramspec/seqcount.prop: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/tel/paramspec/seqcount.prop -------------------------------------------------------------------------------- /tel/paramspec/sigma_factor.prop: -------------------------------------------------------------------------------- 1 | 1 1 2 | 2 2 3 | 3 3 4 | 4 4 5 | 5 5 -------------------------------------------------------------------------------- /tel/paramspec/span.prop: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/tel/paramspec/span.prop -------------------------------------------------------------------------------- /tel/paramspec/ss_scoring.prop: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/tel/paramspec/ss_scoring.prop -------------------------------------------------------------------------------- /tel/paramspec/standarddb.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/tel/paramspec/standarddb.py -------------------------------------------------------------------------------- /tel/paramspec/target_psi_db.prop: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/tel/paramspec/target_psi_db.prop -------------------------------------------------------------------------------- /tel/paramspec/transition_probability.prop: -------------------------------------------------------------------------------- 1 | 0 low 2 | 1 high 3 | -------------------------------------------------------------------------------- /tel/paramspec/win_len.prop: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/tel/paramspec/win_len.prop -------------------------------------------------------------------------------- /tel/runscripts/PREFIX: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/tel/runscripts/PREFIX -------------------------------------------------------------------------------- /tel/runscripts/SUFFIX: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/tel/runscripts/SUFFIX -------------------------------------------------------------------------------- /tel/runscripts/ali2d.sh: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/tel/runscripts/ali2d.sh -------------------------------------------------------------------------------- /tel/runscripts/aln2plot.sh: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/tel/runscripts/aln2plot.sh -------------------------------------------------------------------------------- /tel/runscripts/ancescon.sh: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/tel/runscripts/ancescon.sh -------------------------------------------------------------------------------- /tel/runscripts/backtrans.sh: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/tel/runscripts/backtrans.sh -------------------------------------------------------------------------------- /tel/runscripts/clans.sh: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/tel/runscripts/clans.sh -------------------------------------------------------------------------------- /tel/runscripts/clustalo.sh: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/tel/runscripts/clustalo.sh -------------------------------------------------------------------------------- /tel/runscripts/deepcoil.sh: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/tel/runscripts/deepcoil.sh -------------------------------------------------------------------------------- /tel/runscripts/deepcoil2.sh: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/tel/runscripts/deepcoil2.sh -------------------------------------------------------------------------------- /tel/runscripts/diamond_deepclust.sh: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/tel/runscripts/diamond_deepclust.sh -------------------------------------------------------------------------------- /tel/runscripts/formatseq.sh: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/tel/runscripts/formatseq.sh -------------------------------------------------------------------------------- /tel/runscripts/hhblits.sh: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/tel/runscripts/hhblits.sh -------------------------------------------------------------------------------- /tel/runscripts/hhfilter.sh: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/tel/runscripts/hhfilter.sh -------------------------------------------------------------------------------- /tel/runscripts/hhomp.sh: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/tel/runscripts/hhomp.sh -------------------------------------------------------------------------------- /tel/runscripts/hhpred.sh: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/tel/runscripts/hhpred.sh -------------------------------------------------------------------------------- /tel/runscripts/hhpred_manual.sh: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/tel/runscripts/hhpred_manual.sh -------------------------------------------------------------------------------- /tel/runscripts/hhrepid.sh: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/tel/runscripts/hhrepid.sh -------------------------------------------------------------------------------- /tel/runscripts/hmmer.sh: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/tel/runscripts/hmmer.sh -------------------------------------------------------------------------------- /tel/runscripts/kalign.sh: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/tel/runscripts/kalign.sh -------------------------------------------------------------------------------- /tel/runscripts/mafft.sh: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/tel/runscripts/mafft.sh -------------------------------------------------------------------------------- /tel/runscripts/marcoil.sh: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/tel/runscripts/marcoil.sh -------------------------------------------------------------------------------- /tel/runscripts/mmseqs2.sh: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/tel/runscripts/mmseqs2.sh -------------------------------------------------------------------------------- /tel/runscripts/modeller.sh: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/tel/runscripts/modeller.sh -------------------------------------------------------------------------------- /tel/runscripts/msaprobs.sh: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/tel/runscripts/msaprobs.sh -------------------------------------------------------------------------------- /tel/runscripts/muscle.sh: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/tel/runscripts/muscle.sh -------------------------------------------------------------------------------- /tel/runscripts/patsearch.sh: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/tel/runscripts/patsearch.sh -------------------------------------------------------------------------------- /tel/runscripts/pcoils.sh: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/tel/runscripts/pcoils.sh -------------------------------------------------------------------------------- /tel/runscripts/phyml.sh: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/tel/runscripts/phyml.sh -------------------------------------------------------------------------------- /tel/runscripts/plmblast.sh: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/tel/runscripts/plmblast.sh -------------------------------------------------------------------------------- /tel/runscripts/psiblast.sh: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/tel/runscripts/psiblast.sh -------------------------------------------------------------------------------- /tel/runscripts/quick2d.sh: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/tel/runscripts/quick2d.sh -------------------------------------------------------------------------------- /tel/runscripts/repper.sh: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/tel/runscripts/repper.sh -------------------------------------------------------------------------------- /tel/runscripts/retseq.sh: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/tel/runscripts/retseq.sh -------------------------------------------------------------------------------- /tel/runscripts/samcc.sh: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/tel/runscripts/samcc.sh -------------------------------------------------------------------------------- /tel/runscripts/seq2id.sh: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/tel/runscripts/seq2id.sh -------------------------------------------------------------------------------- /tel/runscripts/sixframe.sh: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/tel/runscripts/sixframe.sh -------------------------------------------------------------------------------- /tel/runscripts/tcoffee.sh: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/tel/runscripts/tcoffee.sh -------------------------------------------------------------------------------- /tel/runscripts/tprpred.sh: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/tel/runscripts/tprpred.sh -------------------------------------------------------------------------------- /tel/wrapper.sh: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/tel/wrapper.sh -------------------------------------------------------------------------------- /test/BrowserSpec.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/test/BrowserSpec.scala -------------------------------------------------------------------------------- /test/ToolkitSpec.scala: -------------------------------------------------------------------------------- 1 | class ToolkitSpec {} 2 | -------------------------------------------------------------------------------- /test/controllers/UptimeSpec.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/test/controllers/UptimeSpec.scala -------------------------------------------------------------------------------- /test/jobs/SubmissionControllerSpec.scala: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/test/jobs/SubmissionControllerSpec.scala -------------------------------------------------------------------------------- /test/resources/alignment.txt: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/test/resources/alignment.txt -------------------------------------------------------------------------------- /version.sbt: -------------------------------------------------------------------------------- 1 | ThisBuild / version := "2.6.5-SNAPSHOT" 2 | -------------------------------------------------------------------------------- /yarn.lock: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/proteinevolution/Toolkit/HEAD/yarn.lock --------------------------------------------------------------------------------