├── .gitignore
├── .eslintrc.js
├── .DS_Store
├── icon.png
├── .vscode
    └── settings.json
├── src
    ├── misc
    │   ├── entitlements.mac.plist
    │   └── notarize.js
    ├── style.css
    ├── renderer_utils
    │   ├── darkMode.js
    │   └── autoUpdate.js
    ├── preload.js
    ├── main_utils
    │   └── menu.js
    └── renderer.js
├── appveyor.yml
├── index.html
├── test
    └── index.js
├── old_package_json_app_store_friendly
├── package.json
├── README.md
├── LICENSE.md
├── main.js
├── CHANGELOG.md
├── pA11990.gb
└── pA11990 copy.gb


/.gitignore:
--------------------------------------------------------------------------------
1 | node_modules
2 | dist/
3 | .env
4 | .DS_Store


--------------------------------------------------------------------------------
/.eslintrc.js:
--------------------------------------------------------------------------------
1 | module.exports = {
2 | 	extends: "teselagen/node"
3 | }


--------------------------------------------------------------------------------
/.DS_Store:
--------------------------------------------------------------------------------
https://raw.githubusercontent.com/TeselaGen/ove-electron/HEAD/.DS_Store


--------------------------------------------------------------------------------
/icon.png:
--------------------------------------------------------------------------------
https://raw.githubusercontent.com/TeselaGen/ove-electron/HEAD/icon.png


--------------------------------------------------------------------------------
/.vscode/settings.json:
--------------------------------------------------------------------------------
 1 | {
 2 |   "files.exclude": {
 3 |     "**/.git": true,
 4 |     "**/.svn": true,
 5 |     "**/.hg": true,
 6 |     "**/CVS": true,
 7 |     "**/.DS_Store": true,
 8 |     "**/Thumbs.db": true,
 9 |     "**/build":false
10 |   }
11 | }


--------------------------------------------------------------------------------
/src/misc/entitlements.mac.plist:
--------------------------------------------------------------------------------
 1 | <?xml version="1.0" encoding="UTF-8"?>
 2 | <!DOCTYPE plist PUBLIC "-//Apple//DTD PLIST 1.0//EN" "http://www.apple.com/DTDs/PropertyList-1.0.dtd">
 3 | <plist version="1.0">
 4 |   <dict>
 5 |     <key>com.apple.security.cs.allow-unsigned-executable-memory</key>
 6 |     <true/>
 7 |     <key>com.apple.security.cs.allow-jit</key>
 8 |     <true/>
 9 |   </dict>
10 | </plist>


--------------------------------------------------------------------------------
/appveyor.yml:
--------------------------------------------------------------------------------
 1 | image: Visual Studio 2019
 2 | environment:
 3 |   GH_TOKEN:
 4 |       secure: kvUWbn2M0QD68917ZIXoOaIR0fPBkFP/VhABUpEIjs+/AHjQjj9L3+qmVeJYeQ9G
 5 | 
 6 | platform:
 7 |   - x64
 8 | 
 9 | cache:
10 |   - node_modules
11 |   - '%USERPROFILE%\.electron'
12 | 
13 | init:
14 |   - git config --global core.autocrlf input
15 | 
16 | install:
17 |   - ps: Install-Product node 14 x64
18 |   - yarn
19 | 
20 | build_script:
21 |   - yarn deploy-win
22 | 
23 | test: off


--------------------------------------------------------------------------------
/src/style.css:
--------------------------------------------------------------------------------
 1 | #notification {
 2 |   position: fixed;
 3 |   bottom: 20px;
 4 |   left: 20px;
 5 |   width: 200px;
 6 |   z-index: 100000;
 7 |   padding: 20px;
 8 |   border-radius: 5px;
 9 |   background-color: white;
10 |   box-shadow: 0 4px 8px 0 rgba(0, 0, 0, 0.2);
11 | }
12 | .hidden {
13 |   display: none;
14 | }
15 | .darkModeBtn {
16 |   z-index: 100000;
17 |   position: absolute;
18 |   top: 5px;
19 |   right: 5px;
20 | }
21 | .bp3-toast-container {
22 |   z-index: 100000000;
23 | }


--------------------------------------------------------------------------------
/src/renderer_utils/darkMode.js:
--------------------------------------------------------------------------------
 1 | //run once per window initialization
 2 | if (window.localStorage.getItem("isDarkMode") === "true") {
 3 |   document.body.classList.add("bp3-dark");
 4 | }
 5 | 
 6 | window.toggleDarkMode = () => {
 7 |   if (document.body.classList.contains("bp3-dark")) {
 8 |     window.localStorage.setItem("isDarkMode", "false");
 9 |     document.body.classList.remove("bp3-dark");
10 |   } else {
11 |     window.localStorage.setItem("isDarkMode", "true");
12 | 
13 |     document.body.classList.add("bp3-dark");
14 |   }
15 | };
16 | 


--------------------------------------------------------------------------------
/src/misc/notarize.js:
--------------------------------------------------------------------------------
 1 | const { notarize } = require('electron-notarize');
 2 | 
 3 | exports.default = async function notarizing(context) {
 4 |   const { electronPlatformName, appOutDir } = context;  
 5 |   if (electronPlatformName !== 'darwin') {
 6 |     return;
 7 |   }
 8 | 
 9 |   const appName = context.packager.appInfo.productFilename;
10 | 
11 |   return await notarize({
12 |     appBundleId: 'com.teselagen.openVectorEditor',
13 |     appPath: `${appOutDir}/${appName}.app`,
14 |     appleId: process.env.APPLEID,
15 |     appleIdPassword: process.env.APPLEIDPASS,
16 |   });
17 | };


--------------------------------------------------------------------------------
/index.html:
--------------------------------------------------------------------------------
 1 | <!DOCTYPE html>
 2 | <html>
 3 |   <head>
 4 |     <meta charset="UTF-8" />
 5 |     <title>Open Vector Editor</title>
 6 |   </head>
 7 |   <body>
 8 |     <!-- You can also require other files to run in this process -->
 9 |     <link
10 |       rel="stylesheet"
11 |       type="text/css"
12 |       href="node_modules/open-vector-editor/umd/main.css"
13 |     />
14 |     <link rel="stylesheet" type="text/css" href="src/style.css" />
15 | 
16 |     <div id="notification" class="hidden">
17 |       <p id="message"></p>
18 |       <button id="close-button" onClick="closeNotification()">
19 |         Close
20 |       </button>
21 |       <button id="restart-button" onClick="restartApp()" class="hidden">
22 |         Restart
23 |       </button>
24 |     </div>
25 | 
26 |     <a
27 |       class="bp3-button bp3-minimal darkModeBtn"
28 |       title="Dark Mode"
29 |       onclick="toggleDarkMode(); return false"
30 |       ><span class="bp3-icon-standard bp3-icon-moon"></span
31 |     ></a>
32 |     <script
33 |       type="text/javascript"
34 |       src="node_modules/open-vector-editor/umd/open-vector-editor.js"
35 |     ></script>
36 |     <script
37 |       type="text/javascript"
38 |       src="node_modules/ove-auto-annotate/umd/ove-auto-annotate.js"
39 |     ></script>
40 |     <script src="./src/renderer.js"></script>
41 |     <!-- <script src="./src/renderer_utils/autoUpdate.js"></script> -->
42 |     <script src="./src/renderer_utils/darkMode.js"></script>
43 |   </body>
44 | </html>
45 | 


--------------------------------------------------------------------------------
/test/index.js:
--------------------------------------------------------------------------------
 1 | // tnr: running `yarn test` will run this file. It doesn't do much at the moment because we can't actually interact with the native dialogs..  
 2 | 
 3 | const Application = require("spectron").Application;
 4 | const assert = require("assert");
 5 | const electronPath = require("electron"); // Require Electron from the binaries included in node_modules.
 6 | const path = require("path");
 7 | 
 8 | describe("Application launch", function () {
 9 |   this.timeout(10000);
10 | 
11 |   const startApp = async () => {
12 |     const app = new Application({
13 |       connectionRetryCount: 1,
14 |       path: electronPath,
15 |       args: [path.join(__dirname, "..")],
16 |     });
17 |     this.app = app;
18 |     await app.start();
19 |     return app;
20 |   };
21 | 
22 |   afterEach(() => {
23 |     if (this.app && this.app.isRunning()) {
24 |       return this.app.stop();
25 |     }
26 |   });
27 | 
28 |   it("saving works", async () => {
29 |     const app = await startApp();
30 |     await app.client.getWindowCount().then((count) => {
31 |       assert.equal(count, 1);
32 |       // Please note that getWindowCount() will return 2 if `dev tools` are opened.
33 |       // assert.equal(count, 2)
34 |     });
35 |     const elem = await app.client.$(`//button[contains(.//span, 'File')]`);
36 |     await elem.click();
37 |     await (await app.client.$(`//a[contains(.//div, 'Save')]`)).click();
38 | 
39 |     //tnr.. spectron doesn't actually support interacting with the dialogs or with menus so this is kind of pointless...
40 |   });
41 | });
42 | 


--------------------------------------------------------------------------------
/src/preload.js:
--------------------------------------------------------------------------------
 1 | // tnr: We now only access the ipcRenderer from here and
 2 | // create a bridge called "api" to communicate back to the
 3 | // main process from renderer. I also am now setting the initial sequence data
 4 | // using a querystring - https://stackoverflow.com/questions/38335004/how-to-pass-parameters-from-main-process-to-render-processes-in-electron/38401579#38401579
 5 | 
 6 | const { ipcRenderer, contextBridge } = require("electron");
 7 | 
 8 | // Adds an object 'api' to the global window object:
 9 | contextBridge.exposeInMainWorld("api", {
10 |   send: async (type, arg) => {
11 |     return await ipcRenderer.invoke(type, arg);
12 |   },
13 | });
14 | 
15 | // Add the initial seq data to the renderer window
16 | 
17 | const urlParams = new URLSearchParams(global.location.search);
18 | 
19 | try {
20 |   const datastring = urlParams.get('initialSeqJson');
21 |   if (datastring) {
22 |     const data = JSON.parse(datastring);
23 |     contextBridge.exposeInMainWorld("initialSeqJson", data);
24 |   }
25 | } catch (error) {
26 |   console.error(`error with initialSeqJson:`, error);
27 | }
28 | // Add the filepath to the renderer window
29 | try {
30 |   const datastring = urlParams.get('filePath');
31 |   if (datastring) {
32 |     const data = JSON.parse(datastring);
33 |     contextBridge.exposeInMainWorld("filePath", data);
34 |   }
35 | } catch (error) {
36 |   console.error(`error with filePath:`, error);
37 | }
38 | 
39 | // function getParameterByName(name, url ) {
40 | //   name = name.replace(/[\[\]]/g, '\\$&');
41 | //   const regex = new RegExp('[?&]' + name + '(=([^&#]*)|&|#|$)'),
42 | //       results = regex.exec(url);
43 | //   if (!results) return null;
44 | //   if (!results[2]) return '';
45 | //   return decodeURIComponent(results[2].replace(/\+/g, ' '));
46 | // }


--------------------------------------------------------------------------------
/src/renderer_utils/autoUpdate.js:
--------------------------------------------------------------------------------
 1 | //tnr: DEPRECATING FOR NOW
 2 | const notification = document.getElementById("notification");
 3 | const message = document.getElementById("message");
 4 | const restartButton = document.getElementById("restart-button");
 5 | window.ipcRenderer.on("checking-for-update", () => {
 6 |   window.ipcRenderer.removeAllListeners("checking-for-update");
 7 |   message.innerText = "Checking for updates...";
 8 |   notification.classList.remove("hidden");
 9 | });
10 | // window.ipcRenderer.on("update-not-available", () => {
11 | //   window.ipcRenderer.removeAllListeners("update-not-available");
12 | //   message.innerText = "No updates available";
13 | //   notification.classList.remove("hidden");
14 | //   setTimeout(() => {
15 | //     notification.classList.add("hidden");
16 | //   }, 2000);
17 | // });
18 | window.ipcRenderer.on("download-progress", (e, text) => {
19 |   message.innerText = text;
20 |   notification.classList.remove("hidden"); //tnrtodo comment this out
21 | });
22 | window.ipcRenderer.on("error", (e, text) => {
23 |   window.ipcRenderer.removeAllListeners("error");
24 |   message.innerText = "Error updating: " + text;
25 | });
26 | window.ipcRenderer.on("update_available", () => {
27 |   window.ipcRenderer.removeAllListeners("update_available");
28 |   message.innerText = "A new update is available. Downloading now...";
29 |   notification.classList.remove("hidden");
30 | });
31 | window.ipcRenderer.on("update_downloaded", () => {
32 |   window.ipcRenderer.removeAllListeners("update_downloaded");
33 |   message.innerText =
34 |     "Update Downloaded. It will be installed on restart. Restart now?";
35 |   restartButton.classList.remove("hidden");
36 |   notification.classList.remove("hidden");
37 | });
38 | 
39 | window.closeNotification = function closeNotification() {
40 |   notification.classList.add("hidden");
41 | };
42 | window.restartApp = function restartApp() {
43 |   window.ipcRenderer.send("restart_app");
44 | };
45 | 


--------------------------------------------------------------------------------
/old_package_json_app_store_friendly:
--------------------------------------------------------------------------------
  1 | {
  2 |   "name": "ove-electron",
  3 |   "version": "1.4.3",
  4 |   "description": "An open source vector or plasmid editor",
  5 |   "main": "main.js",
  6 |   "scripts": {
  7 |     "start": "electron . ./pA11990.gb",
  8 |     "test": "mocha",
  9 |     "build": "env-cmd electron-builder -wml --publish never",
 10 |     "build-win": "env-cmd electron-builder --win --publish never",
 11 |     "build-mac": "env-cmd electron-builder --mac --publish never",
 12 |     "deploy": "env-cmd electron-builder --mac --linux --publish always",
 13 |     "deploy-win": "electron-builder --win --publish always",
 14 |     "deploy-mac": "env-cmd electron-builder --mac --publish always",
 15 |     "deploy-linux": "env-cmd electron-builder --linux --publish always",
 16 |     "generateChangelog": "auto-changelog -p && git add . && git commit -m 'Updating CHANGELOG' && git push"
 17 |   },
 18 |   "build": {
 19 |     "appx": {
 20 |       "identityName": "56560Teselagen.OpenVectorEditor",
 21 |       "publisher": "CN=D373F92F-3481-433F-9DC5-0BE55DE5500D",
 22 |       "publisherDisplayName": "Teselagen",
 23 |       "applicationId": "OpenVectorEditor",
 24 |       "displayName": "OpenVectorEditor"
 25 |     },
 26 |     "win": {
 27 |       "target": "appx"
 28 |     },
 29 |     "productName": "OpenVectorEditor",
 30 |     "publish": {
 31 |       "provider": "github",
 32 |       "repo": "ove-electron",
 33 |       "owner": "tnrich"
 34 |     },
 35 |     "afterSign": "src/misc/notarize.js",
 36 |     "mac": {
 37 |       "hardenedRuntime": true,
 38 |       "gatekeeperAssess": false,
 39 |       "target": {
 40 |         "target": "default",
 41 |         "arch": [
 42 |           "x64",
 43 |           "arm64"
 44 |         ]
 45 |       },
 46 |       "entitlements": "src/misc/entitlements.mac.plist",
 47 |       "entitlementsInherit": "src/misc/entitlements.mac.plist"
 48 |     },
 49 |     "appId": "com.teselagen.openVectorEditor",
 50 |     "fileAssociations": [
 51 |       {
 52 |         "ext": "json"
 53 |       },
 54 |       {
 55 |         "ext": "gb"
 56 |       },
 57 |       {
 58 |         "ext": "dna"
 59 |       },
 60 |       {
 61 |         "ext": "gbk"
 62 |       },
 63 |       {
 64 |         "ext": "gp"
 65 |       },
 66 |       {
 67 |         "ext": "fas"
 68 |       },
 69 |       {
 70 |         "ext": "fasta"
 71 |       },
 72 |       {
 73 |         "ext": "fa"
 74 |       },
 75 |       {
 76 |         "ext": "fna"
 77 |       },
 78 |       {
 79 |         "ext": "ffn"
 80 |       },
 81 |       {
 82 |         "ext": "gff"
 83 |       },
 84 |       {
 85 |         "ext": "gff3"
 86 |       }
 87 |     ]
 88 |   },
 89 |   "repository": "https://github.com/electron/ove-electron",
 90 |   "keywords": [
 91 |     "Electron",
 92 |     "open-vector-editor",
 93 |     "plasmid",
 94 |     "editor",
 95 |     "dna",
 96 |     "ove"
 97 |   ],
 98 |   "author": "tnrich",
 99 |   "license": "MIT",
100 |   "devDependencies": {
101 |     "auto-changelog": "^2.4.0",
102 |     "electron": "^21.1.0",
103 |     "electron-builder": "^23.6.0",
104 |     "electron-notarize": "^1.2.1",
105 |     "env-cmd": "^10.1.0",
106 |     "eslint": "^8.24.0",
107 |     "eslint-config-teselagen": "^6.0.6",
108 |     "mocha": "^10.0.0",
109 |     "spectron": "^19.0.0"
110 |   },
111 |   "dependencies": {
112 |     "bio-parsers": "^8.3.32",
113 |     "electron-updater": "^5.3.0",
114 |     "electron-window-state": "^5.0.3",
115 |     "open-vector-editor": "^18.1.37",
116 |     "ove-auto-annotate": "^0.0.5",
117 |     "querystring": "^0.2.1",
118 |     "ve-range-utils": "^2.6.6",
119 |     "ve-sequence-utils": "^5.1.38"
120 |   }
121 | }
122 | 


--------------------------------------------------------------------------------
/package.json:
--------------------------------------------------------------------------------
  1 | {
  2 |   "name": "ove-electron",
  3 |   "version": "1.5.5",
  4 |   "description": "An open source vector or plasmid editor",
  5 |   "main": "main.js",
  6 |   "author": "Thomas (tnrich) Willheim <tnrich@teselagen.com>",
  7 |   "scripts": {
  8 |     "start": "electron . ./pA11990.gb",
  9 |     "test": "mocha",
 10 |     "build": "env-cmd electron-builder -wml --publish never",
 11 |     "build-win": "env-cmd electron-builder --win --publish never",
 12 |     "build-mac": "env-cmd electron-builder --mac --publish never",
 13 |     "build-linux": "env-cmd electron-builder --linux --publish never",
 14 |     "deploy": "env-cmd electron-builder --mac --linux --win --publish always",
 15 |     "deploy-win": "electron-builder --win --publish always",
 16 |     "deploy-mac": "env-cmd electron-builder --mac --publish always",
 17 |     "deploy-linux": "env-cmd electron-builder --linux --publish always",
 18 |     "generateChangelog": "auto-changelog -p && git add . && git commit -m 'Updating CHANGELOG' && git push"
 19 |   },
 20 |   "build": {
 21 |     "appx": {
 22 |       "identityName": "56560Teselagen.OpenVectorEditor",
 23 |       "publisher": "CN=D373F92F-3481-433F-9DC5-0BE55DE5500D",
 24 |       "publisherDisplayName": "Teselagen",
 25 |       "applicationId": "OpenVectorEditor",
 26 |       "displayName": "OpenVectorEditor"
 27 |     },
 28 |     "win": {
 29 |       "target": "nsis"
 30 |     },
 31 |     "linux": {
 32 |       "target": {
 33 |         "target": "deb",
 34 |         "arch": [
 35 |           "x64",
 36 |           "arm64"
 37 |         ]
 38 |       },
 39 |       "icon": "build/icon.icns"
 40 |     },
 41 |     "productName": "OpenVectorEditor",
 42 |     "publish": {
 43 |       "provider": "github",
 44 |       "repo": "ove-electron",
 45 |       "owner": "tnrich"
 46 |     },
 47 |     "afterSign": "src/misc/notarize.js",
 48 |     "mac": {
 49 |       "hardenedRuntime": true,
 50 |       "gatekeeperAssess": false,
 51 |       "target": {
 52 |         "target": "dmg",
 53 |         "arch": [
 54 |           "x64",
 55 |           "arm64"
 56 |         ]
 57 |       },
 58 |       "entitlements": "src/misc/entitlements.mac.plist",
 59 |       "entitlementsInherit": "src/misc/entitlements.mac.plist"
 60 |     },
 61 |     "appId": "com.teselagen.openVectorEditor",
 62 |     "fileAssociations": [
 63 |       {
 64 |         "ext": "json"
 65 |       },
 66 |       {
 67 |         "ext": "gb"
 68 |       },
 69 |       {
 70 |         "ext": "dna"
 71 |       },
 72 |       {
 73 |         "ext": "gbk"
 74 |       },
 75 |       {
 76 |         "ext": "gp"
 77 |       },
 78 |       {
 79 |         "ext": "fas"
 80 |       },
 81 |       {
 82 |         "ext": "fasta"
 83 |       },
 84 |       {
 85 |         "ext": "fa"
 86 |       },
 87 |       {
 88 |         "ext": "fna"
 89 |       },
 90 |       {
 91 |         "ext": "ffn"
 92 |       },
 93 |       {
 94 |         "ext": "gff"
 95 |       },
 96 |       {
 97 |         "ext": "gff3"
 98 |       }
 99 |     ]
100 |   },
101 |   "repository": "https://github.com/electron/ove-electron",
102 |   "keywords": [
103 |     "Electron",
104 |     "open-vector-editor",
105 |     "plasmid",
106 |     "editor",
107 |     "dna",
108 |     "ove"
109 |   ],
110 |   "license": "MIT",
111 |   "devDependencies": {
112 |     "auto-changelog": "^2.4.0",
113 |     "electron": "22.0.0",
114 |     "electron-builder": "^23.6.0",
115 |     "electron-notarize": "^1.2.1",
116 |     "env-cmd": "^10.1.0",
117 |     "eslint": "^8.28.0",
118 |     "eslint-config-teselagen": "^6.0.16",
119 |     "mocha": "^10.1.0",
120 |     "spectron": "^19.0.0"
121 |   },
122 |   "dependencies": {
123 |     "bio-parsers": "^9.0.1",
124 |     "electron-updater": "^5.3.0",
125 |     "electron-window-state": "^5.0.3",
126 |     "open-vector-editor": "^18.1.53",
127 |     "ove-auto-annotate": "^0.0.5",
128 |     "querystring": "^0.2.1",
129 |     "ve-range-utils": "^2.6.6",
130 |     "ve-sequence-utils": "^5.2.8"
131 |   }
132 | }
133 | 


--------------------------------------------------------------------------------
/src/main_utils/menu.js:
--------------------------------------------------------------------------------
  1 | const { Menu } = require("electron");
  2 | 
  3 | const { dialog } = require("electron");
  4 | 
  5 | const isMac = process.platform === "darwin";
  6 | 
  7 | module.exports = function createMenu({ createWindow, getSeqJsonFromPath }) {
  8 |   const template = [
  9 |     // { role: 'appMenu' }
 10 |     ...(isMac
 11 |       ? [
 12 |           {
 13 |             label: "OVE",
 14 |             submenu: [
 15 |               { role: "about" },
 16 |               { type: "separator" },
 17 |               { role: "services" },
 18 |               { type: "separator" },
 19 |               { role: "hide" },
 20 |               { role: "hideothers" },
 21 |               { role: "unhide" },
 22 |               { type: "separator" },
 23 |               { role: "quit" },
 24 |             ],
 25 |           },
 26 |         ]
 27 |       : []),
 28 |     // { role: 'fileMenu' }
 29 |     {
 30 |       label: "File",
 31 |       submenu: [
 32 |         {
 33 |           label: "New File",
 34 |           accelerator: "CmdOrCtrl+N",
 35 |           click: () => {
 36 |             createWindow({
 37 |               initialSeqJson: undefined,
 38 |             });
 39 |           },
 40 |         },
 41 |         {
 42 |           label: "Open",
 43 |           accelerator: "CmdOrCtrl+O",
 44 |           click: async () => {
 45 |             const { filePaths } = await dialog.showOpenDialog({
 46 |               filters: [
 47 |                 {
 48 |                   name: "Sequence Files",
 49 |                   extensions: [
 50 |                     "gb",
 51 |                     "json",
 52 |                     "dna",
 53 |                     "gbk",
 54 |                     "gp",
 55 |                     "fas",
 56 |                     "fasta",
 57 |                     "fa",
 58 |                     "fna",
 59 |                     "ffn",
 60 |                     "gff",
 61 |                     "gff3",
 62 |                   ],
 63 |                 },
 64 |               ],
 65 |               properties: ["openFile", "multiSelections"],
 66 |             });
 67 | 
 68 |             filePaths.forEach(async (p) => {
 69 |               const initialSeqJson = await getSeqJsonFromPath(p);
 70 |               createWindow({
 71 |                 initialSeqJson,
 72 |                 filePath: p
 73 |               });
 74 |             });
 75 |           },
 76 |         },
 77 |         isMac ? { role: "close" } : { role: "quit" },
 78 |       ],
 79 |     },
 80 |     // { role: 'editMenu' }
 81 |     {
 82 |       label: "Edit",
 83 |       submenu: [
 84 |         // { role: 'undo' },
 85 |         // { role: 'redo' },
 86 |         // { type: 'separator' },
 87 |         { role: "cut" },
 88 |         { role: "copy" },
 89 |         { role: "paste" },
 90 |         // ...(isMac ? [
 91 |         //   { role: 'pasteAndMatchStyle' },
 92 |         //   { role: 'delete' },
 93 |         //   { role: 'selectAll' },
 94 |         //   { type: 'separator' },
 95 |         //   {
 96 |         //     label: 'Speech',
 97 |         //     submenu: [
 98 |         //       { role: 'startspeaking' },
 99 |         //       { role: 'stopspeaking' }
100 |         //     ]
101 |         //   }
102 |         // ] : [
103 |         //   { role: 'delete' },
104 |         //   { type: 'separator' },
105 |         //   { role: 'selectAll' }
106 |         // ])
107 |       ],
108 |     },
109 |     // { role: 'viewMenu' }
110 |     {
111 |       label: "View",
112 |       submenu: [
113 |         { role: "reload" },
114 |         { role: "forcereload" },
115 |         { role: "toggledevtools" },
116 |         { type: "separator" },
117 |         { role: "resetzoom" },
118 |         { role: "zoomin" },
119 |         { role: "zoomout" },
120 |         { type: "separator" },
121 |         { role: "togglefullscreen" },
122 |       ],
123 |     },
124 |     // { role: 'windowMenu' }
125 |     {
126 |       label: "Window",
127 |       submenu: [
128 |         { role: "minimize" },
129 |         { role: "zoom" },
130 |         ...(isMac
131 |           ? [
132 |               { type: "separator" },
133 |               { role: "front" },
134 |               { type: "separator" },
135 |               { role: "window" },
136 |             ]
137 |           : [{ role: "close" }]),
138 |       ],
139 |     },
140 |   ];
141 | 
142 |   // const menu = Menu.buildFromTemplate([
143 |   //   {label: "a", click: }
144 |   // ])
145 |   const menu = Menu.buildFromTemplate(template);
146 |   Menu.setApplicationMenu(menu);
147 | };
148 | 


--------------------------------------------------------------------------------
/README.md:
--------------------------------------------------------------------------------
  1 | ![image](https://user-images.githubusercontent.com/2730609/67169732-df3ca800-f348-11e9-8003-baa91cd8cfec.png)
  2 | 
  3 | # ove-electron
  4 | 
  5 | This packages the open-vector-editor web app as an electron tool that can be used on windows/mac/linux
  6 | 
  7 | ![image](https://user-images.githubusercontent.com/2730609/67169717-c59b6080-f348-11e9-995a-89b7213428ff.png)
  8 | 
  9 | # Installation Instructions:
 10 | - windows -- go to the windows store https://www.microsoft.com/en-us/p/openvectoreditor/9nxcc5vc41k9?activetab=pivot:overviewtab and download it! (old instructions: download the .exe file and double click to install it)
 11 | 
 12 | - Mac/Linux: Go to https://github.com/tnrich/ove-electron/releases and find the latest release for the platform you're on (win/mac/linux)
 13 | - mac -- download the DMG file and double click to install it
 14 | - linux -- download the .AppImage file and open a terminal. Run:
 15 | 
 16 | ```
 17 | chmod +x Open-Vector-Editor-0.1.5.AppImage
 18 | ./Open-Vector-Editor-0.1.5.AppImage
 19 | ```
 20 | 
 21 | # Developing
 22 | 
 23 | ```
 24 | yarn
 25 | yarn start
 26 | ```
 27 | 
 28 | ## To speed up trying out changes from OVE
 29 | 
 30 | ```
 31 | cd open-vector-editor;
 32 | yarn link;
 33 | cd ove-electron;
 34 | yarn link open-vector-editor
 35 | 
 36 | <!-- comment in these lines in open-vector-editor nwb.config.js to speed up the build -->
 37 | esModules: console.log("commentMeBackOut") || false,
 38 | cjs: console.log("commentMeBackOut") || false
 39 | 
 40 | cd open-vector-editor;
 41 | yarn build; //this will now build only the UMD file that ove-electron uses
 42 | ```
 43 | # Releasing
 44 | - Bump the package.json version number
 45 | - Build mac, windows and linux:
 46 | ```
 47 | yarn deploy
 48 | ```
 49 | - (despite having tried to remove macOS code signing from the process because it takes way too long to run, it looks like mac says the file is Damaged unless it has been code-signed - https://github.com/TeselaGen/openVectorEditor/issues/862#issuecomment-1333771642)
 50 | - Go to https://github.com/tnrich/ove-electron/releases
 51 | - Edit the most recently pushed release to publish it
 52 | - Add the following instructions to the release notes 
 53 | <---------------Copy Paste The Following into the Release Notes------------------->
 54 | # Installing on Mac 
 55 | - Download the correct mac file (arm64.dmg for M1/M2 macs or .dmg for intel macs)
 56 | - Right click the downloaded file and hit open (can't double click to open it)
 57 | - Accept the unknown developer warning
 58 | 
 59 | # Installing on Ubuntu (or other .deb linux flavors):
 60 | - Download the .deb file (either the AMD or ARM file based on the chip you're computer is using)
 61 | - From the terminal run:
 62 | ```
 63 | sudo dpkg -i ./Downloads/ove-electron_1.5.0_arm64.deb
 64 | ```
 65 | 
 66 | # Installing on Windows
 67 | - Download the .exe file 
 68 | - Choose to keep the file (if it warns you it might be malicious)
 69 | - Open it (it should start the installer)
 70 | <---------------Copy Paste The Above into the Release Notes------------------->
 71 | # Testing
 72 | 
 73 | I've set up a single spectron test under /test
 74 | It can be run via `yarn test`
 75 | Unfortunately spectron doesn't support interacting with native dialogs so I'd need to mock those to have the tests be at all useful. I should probably do this sometime down the line. (note OVE itself is close to full test coverage https://github.com/TeselaGen/openVectorEditor)
 76 | 
 77 | 
 78 | # DEPRECATED::DEPRECATED::DEPRECATED::DEPRECATED::DEPRECATED::DEPRECATED::DEPRECATED::
 79 | # OLD -- Releasing
 80 | 
 81 | These environment variables will need to be set in a local .env file:
 82 | 
 83 | ```
 84 | APPLEID=yourstringhere //my apple id
 85 | //this needs to be an app-specific password (not just my apple password) https://appleid.apple.com/account/manage
 86 | APPLEIDPASS=yourstringhere 
 87 | GH_TOKEN=yourstringhere
 88 | ```
 89 | 
 90 | - Bump the package.json version number
 91 | Login to snapcraft (credentials under https://passwords.google.com/ --> ubuntu.com)
 92 | snapcraft login
 93 | Go to https://developer.apple.com/account and make sure all notices are signed
 94 | - Build mac and linux:
 95 | ```
 96 | yarn deploy
 97 | ```
 98 | wait for it to finish
 99 | - Go to https://github.com/tnrich/ove-electron/releases
100 | - Edit the most recently pushed release to publish it
101 | - Keep all the files (the blockmap and latest.yml files as they are used by the auto-updater)
102 | - Commit changes
103 | - yarn generateChangelog
104 | 
105 | - Windows needs to be built by appveyor. Hit the "New Build" button here to start the windows build - https://ci.appveyor.com/project/tnrich/ove-electron
106 | - after it finishes building it should automatically be pushed to the draft release page https://github.com/tnrich/ove-electron/releases
107 | - go to https://partner.microsoft.com/en-us/dashboard/products and add a new submission for the store using the appx file in the draft release
108 | 
109 | ## Troubleshooting release process
110 | 
111 | How auto-updating works :
112 | https://medium.com/@johndyer24/creating-and-deploying-an-auto-updating-electron-app-for-mac-and-windows-using-electron-builder-6a3982c0cee6
113 | 
114 | If apple notarize isn't working, this can help to troubleshoot:
115 | https://stackoverflow.com/questions/58358449/notarizing-electron-apps-throws-you-must-first-sign-the-relevant-contracts-on
116 | 
117 | If you're seeing an itunes signing in error, maybe the app specific password needs to be updated:
118 | https://david.dev/how-to-notarize-your-electron-app
119 | 
120 | If you're seeing this error:
121 | The request is missing an Authorization header field containing a valid macaroon
122 | You'll need to re-login to snapcraft.io (credentials under ubuntu.com)
123 | 
124 | ```
125 | snapcraft login
126 | ```
127 | # DEPRECATED::DEPRECATED::DEPRECATED::DEPRECATED::DEPRECATED::DEPRECATED::DEPRECATED::


--------------------------------------------------------------------------------
/LICENSE.md:
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--------------------------------------------------------------------------------
/main.js:
--------------------------------------------------------------------------------
  1 | /* eslint-disable no-console*/
  2 | // Modules to control application life and create native browser window
  3 | const { app, BrowserWindow, ipcMain, dialog } = require("electron");
  4 | const path = require("path");
  5 | const bioParsers = require("bio-parsers");
  6 | const fs = require("fs");
  7 | const createMenu = require("./src/main_utils/menu");
  8 | const windowStateKeeper = require("electron-window-state");
  9 | const { autoUpdater } = require("electron-updater");
 10 | 
 11 | let isAppReady = false;
 12 | let isMacOpenTriggered = false;
 13 | // Keep a global reference of the window object, if you don't, the window will
 14 | // be closed automatically when the JavaScript object is garbage collected.
 15 | const windows = [];
 16 | createMenu({ windows, createWindow, getSeqJsonFromPath });
 17 | 
 18 | async function getSeqJsonFromPath(_filePath) {
 19 |   const filePath = _filePath || process.argv[1];
 20 |   // const filePath = _filePath || process.argv[2] || process.argv[1];
 21 |   if (filePath === ".") return;
 22 |   const data = fs.readFileSync(path.resolve(filePath));
 23 |   //open, read, handle file
 24 |   if (!data) return;
 25 |   const fileName = filePath.replace(/^.*[\\/]/, "");
 26 |   try {
 27 |     if (fileName.endsWith(".json") && (data.sequence || data.proteinSequence)) {
 28 |       return data;
 29 |     }
 30 |     const res = await bioParsers.anyToJson(data, { fileName });
 31 |     return res[0].parsedSequence;
 32 |   } catch (error) {
 33 |     console.error(`error:`, error);
 34 |     return {};
 35 |   }
 36 | }
 37 | 
 38 | function waitTillAppReady() {
 39 |   return new Promise((resolve, reject) => {
 40 |     const waitTillReadyInterval = setInterval(() => {
 41 |       if (isAppReady) {
 42 |         resolve();
 43 |         clearInterval(waitTillReadyInterval);
 44 |       }
 45 |     }, 100);
 46 |   });
 47 | }
 48 | 
 49 | async function createWindow({ initialSeqJson, filePath, windowToUse } = {}) {
 50 |   await waitTillAppReady();
 51 |   //if no windowVars are passed then we should
 52 |   // Create the browser window.
 53 | 
 54 |   if (filePath) {
 55 |     let alreadyOpen = false;
 56 |     windows.forEach((w) => {
 57 |       if (w.__filePath === filePath) {
 58 |         w.bw.show();
 59 |         alreadyOpen = true;
 60 |       }
 61 |     });
 62 |     if (alreadyOpen) {
 63 |       return;
 64 |     }
 65 |   }
 66 |   const mainWindowState = windowStateKeeper({
 67 |     defaultWidth: 1000,
 68 |     defaultHeight: 800,
 69 |   });
 70 | 
 71 |   let newWindow =
 72 |     windowToUse ||
 73 |     new BrowserWindow({
 74 |       x: mainWindowState.x,
 75 |       y: mainWindowState.y,
 76 |       width: mainWindowState.width,
 77 |       height: mainWindowState.height,
 78 |       show: false,
 79 |       webPreferences: {
 80 |         contextIsolation: true,
 81 |         // nodeIntegration: true, //we don't want to enable this because it is a security risk and slows down the app
 82 |         preload: path.join(__dirname, "src/preload.js"),
 83 |       },
 84 |     });
 85 | 
 86 |   newWindow.once("ready-to-show", () => {
 87 |     newWindow.show();
 88 |   });
 89 | 
 90 |   // Let us register listeners on the window, so we can update the state
 91 |   // automatically (the listeners will be removed when the window is closed)
 92 |   // and restore the maximized or full screen state
 93 |   mainWindowState.manage(newWindow);
 94 | 
 95 |   !windowToUse &&
 96 |     windows.push({
 97 |       bw: newWindow,
 98 |       //set a __filePath property so we can reference this if a user tries to open the same file multiple times
 99 |       __filePath: filePath,
100 |     });
101 | console.log(`initialSeqJson:`,initialSeqJson)
102 |   newWindow.loadFile("index.html", {
103 |     query: { initialSeqJson: JSON.stringify(initialSeqJson), filePath },
104 |   });
105 | 
106 |   // Open the DevTools.
107 |   // newWindow.webContents.openDevTools()
108 | 
109 |   // Emitted when the window is closed.
110 |   newWindow.on("closed", function () {
111 |     // Dereference the window object, usually you would store windows
112 |     // in an array if your app supports multi windows, this is the time
113 |     // when you should delete the corresponding element.
114 |     let indexToSplice;
115 |     windows.forEach((w, i) => {
116 |       if (w.bw === newWindow) {
117 |         indexToSplice = i;
118 |       }
119 |     });
120 |     windows.splice(indexToSplice, 1);
121 |     newWindow = null;
122 |   });
123 | }
124 | 
125 | app.on("open-file", async (event, path) => {
126 |   isMacOpenTriggered = true;
127 |   //mac only
128 |   event.preventDefault();
129 |   console.log(`open-file`)
130 |   try {
131 |     console.log("trying to open gb file");
132 |     const initialSeqJson = await getSeqJsonFromPath(path);
133 |     createWindow({ filePath: path, initialSeqJson });
134 |   } catch (e) {
135 |     console.error(`e73562891230:`, e);
136 |   }
137 | });
138 | 
139 | // This method will be called when Electron has finished
140 | // initialization and is ready to create browser windows.
141 | // Some APIs can only be used after this event occurs.
142 | app.on("ready", async () => {
143 |   console.info(`App Starting Up`);
144 |   autoUpdater.checkForUpdatesAndNotify();
145 |   isAppReady = true;
146 |   if (!windows.length && !isMacOpenTriggered) {
147 |     let initialSeqJson;
148 |     if ( process.argv.length >= 2) {
149 |       initialSeqJson = await getSeqJsonFromPath();
150 |     }
151 |     createWindow({ filePath: path, initialSeqJson });
152 |   }
153 | });
154 | 
155 | // Quit when all windows are closed.
156 | app.on("window-all-closed", function () {
157 |   // On macOS it is common for applications and their menu bar
158 |   // to stay active until the user quits explicitly with Cmd + Q
159 |   if (process.platform !== "darwin") app.quit();
160 | });
161 | 
162 | app.on("activate", function () {
163 |   // On macOS it's common to re-create a window in the app when the
164 |   // dock icon is clicked and there are no other windows open.
165 |   if (!windows.length) {
166 |     console.log(`onActivate`);
167 |     createWindow();
168 |   }
169 | });
170 | 
171 | // ipcMain.on("restart_app", () => {
172 | //   setImmediate(() => {
173 | //     autoUpdater.quitAndInstall();
174 | //   });
175 | // });
176 | 
177 | /*  HANDLE THE API CALLS FROM THE RENDERER PROCESS  */
178 | 
179 | ipcMain.handle(
180 |   "ove_saveFile",
181 |   (event, { sequenceDataToSave, filePath, isSaveAs }) => {
182 |     const browserWindow = BrowserWindow.fromWebContents(event.sender);
183 | 
184 |     const ext = path.extname(filePath);
185 | 
186 |     let formattedSeqString;
187 |     if (ext === ".fasta") {
188 |       formattedSeqString = bioParsers.jsonToFasta(sequenceDataToSave);
189 |     } else if (ext === ".bed") {
190 |       formattedSeqString = bioParsers.jsonToBed(sequenceDataToSave);
191 |     } else if (ext === ".json") {
192 |       formattedSeqString = JSON.stringify(sequenceDataToSave, null, 2);
193 |     } else {
194 |       formattedSeqString = bioParsers.jsonToGenbank(sequenceDataToSave);
195 |     }
196 |     fs.writeFileSync(filePath, formattedSeqString);
197 |     !isSaveAs &&
198 |       windows.forEach((w) => {
199 |         if (w.bw === browserWindow) {
200 |           //update the __filePath prop we're saving on the window to prevent opening the same file twice
201 |           w.__filePath = filePath;
202 |         }
203 |       });
204 |   }
205 | );
206 | 
207 | ipcMain.handle("ove_showSaveDialog", async (event, opts) => {
208 |   return dialog.showSaveDialogSync(
209 |     BrowserWindow.fromWebContents(event.sender),
210 |     opts
211 |   );
212 | });
213 | 
214 | /*  **************************************************  */
215 | 


--------------------------------------------------------------------------------
/src/renderer.js:
--------------------------------------------------------------------------------
  1 | // This window.initialSeqJson is getting set in preload from the query string from the main process load() call
  2 | const seqDataToUse = window.initialSeqJson || { circular: true };
  3 | // export default generateSequenceData()
  4 | const originalTitle = document.title;
  5 | 
  6 | setNewTitle(seqDataToUse.name);
  7 | 
  8 | function setNewTitle(name) {
  9 |   document.title = originalTitle + " -- " + (name || "Untitled Sequence");
 10 | }
 11 | 
 12 | const handleSave =
 13 |   (isSaveAs) =>
 14 |   async (event, sequenceDataToSave, editorProps, onSuccessCallback) => {
 15 |     const filters = [
 16 |       { name: "Genbank", extensions: ["gb"] },
 17 |       { name: "Fasta", extensions: ["fasta"] },
 18 |       { name: "TeselaGen JSON", extensions: ["json"] },
 19 |       { name: "Bed", extensions: ["bed"] },
 20 |     ];
 21 | 
 22 |     let nameToUse;
 23 |     let defaultPath = "~/Downloads/";
 24 |     if (window.filePath) {
 25 |       nameToUse = window.filePath.slice(window.filePath.lastIndexOf("/") + 1);
 26 |       defaultPath = window.filePath.slice(
 27 |         0,
 28 |         window.filePath.lastIndexOf("/") + 1
 29 |       );
 30 |     }
 31 |     //we need to get the newFilePath
 32 |     nameToUse =
 33 |       nameToUse || `${sequenceDataToSave.name || "Untitled_Sequence"}.gb`;
 34 |     const newFilePath = await window.api.send("ove_showSaveDialog", {
 35 |       filters,
 36 |       title: nameToUse,
 37 |       defaultPath: defaultPath + nameToUse,
 38 |       buttonLabel: `Save file ${isSaveAs ? "as" : ""}`,
 39 |     });
 40 | 
 41 |     if (!newFilePath) {
 42 |       return; //cancel the save!
 43 |     }
 44 | 
 45 |     sequenceDataToSave.name = newFilePath.slice(
 46 |       newFilePath.lastIndexOf("/") + 1
 47 |     );
 48 |     filters.forEach(({ extensions }) => {
 49 |       //strip the extension from the name
 50 |       sequenceDataToSave.name = sequenceDataToSave.name.replace(
 51 |         `.${extensions[0]}`,
 52 |         ""
 53 |       );
 54 |     });
 55 | 
 56 |     if (!isSaveAs) {
 57 |       setNewTitle(sequenceDataToSave.name);
 58 |       window.filePath = newFilePath;
 59 |       editor.updateEditor({
 60 |         //update the name of the seq without triggering the undo/redo stack tracking
 61 |         sequenceData: sequenceDataToSave,
 62 |       });
 63 |     }
 64 | 
 65 |     window.api.send("ove_saveFile", {
 66 |       filePath: newFilePath,
 67 |       sequenceDataToSave,
 68 |       isSaveAs,
 69 |     });
 70 |     onSuccessCallback();
 71 |     window.toastr.success(`Sequence Saved to ${newFilePath}`);
 72 |   };
 73 | 
 74 | const editor = window.createVectorEditor("createDomNodeForMe", {
 75 |   autoAnnotateFeatures: window._ove_addons.autoAnnotateFeatures,
 76 |   autoAnnotateParts: window._ove_addons.autoAnnotateParts,
 77 |   autoAnnotatePrimers: window._ove_addons.autoAnnotatePrimers,
 78 |   isFullscreen: true,
 79 |   // or you can pass "createDomNodeForMe" but make sure to use editor.close() to clean up the dom node!
 80 | 
 81 |   //you can also pass a DOM node as the first arg here
 82 |   // showReadOnly: false,
 83 |   // disableSetReadOnly: true,
 84 |   allowPrimerBasesToBeEdited: true,
 85 |   defaultLinkedOligoMessage: '',
 86 |   shouldAutosave: false,
 87 |   alwaysAllowSave: true,
 88 |   // rightClickOverrides: {
 89 |   //   selectionLayerRightClicked: (items /* { annotation }, props */) => {
 90 |   //     return [
 91 |   //       ...items,
 92 |   //       {
 93 |   //         text: "Create Part",
 94 |   //         onClick: () => console.info("hey!≈")
 95 |   //       }
 96 |   //     ];
 97 |   //   }
 98 |   // },
 99 |   // handleFullscreenClose: () => { //comment this function in to make the editor fullscreen by default
100 |   //   editor.close() //this calls reactDom.unmountComponent at the node you passed as the first arg
101 |   // },
102 |   onRename: (newName) => {
103 |     setNewTitle(newName);
104 |   }, //this option should be shown by default
105 |   // onNew: () => {}, //unless this callback is defined, don't show the option to create a new seq
106 |   // onDuplicate: () => {}, //unless this callback is defined, don't show the option to create a new seq
107 |   onSaveAs: handleSave(true),
108 |   onSave: handleSave(),
109 |   onImport: (sequenceData) => {
110 |     try {
111 |       editor.updateEditor({
112 |         sequenceData,
113 |       });
114 |     } catch (error) {
115 |       console.error(`error 129821:`, error);
116 |     }
117 |   },
118 |   // onDelete: data => {
119 |   //   console.warn("would delete", data);
120 |   // },
121 |   // onCopy: function(event, copiedSequenceData /* , editorState */) {
122 |   //   //the copiedSequenceData is the subset of the sequence that has been copied in the teselagen sequence format
123 |   //   const clipboardData = event.clipboardData;
124 |   //   clipboardData.setData("text/plain", copiedSequenceData.sequence);
125 |   //   clipboardData.setData(
126 |   //     "application/json",
127 |   //     //for example here you could change teselagen parts into jbei parts
128 |   //     JSON.stringify(copiedSequenceData)
129 |   //   );
130 |   //   event.preventDefault();
131 |   //   //in onPaste in your app you can do:
132 |   //   // e.clipboardData.getData('application/json')
133 |   // },
134 |   // onPaste: function(event /* , editorState */) {
135 |   //   //the onPaste here must return sequenceData in the teselagen data format
136 |   //   const clipboardData = event.clipboardData;
137 |   //   let jsonData = clipboardData.getData("application/json");
138 |   //   if (jsonData) {
139 |   //     jsonData = JSON.parse(jsonData);
140 |   //     if (jsonData.isJbeiSeq) {
141 |   //       jsonData = convertJbeiToTeselagen(jsonData);
142 |   //     }
143 |   //   }
144 |   //   const sequenceData = jsonData || {
145 |   //     sequence: clipboardData.getData("text/plain")
146 |   //   };
147 |   //   return sequenceData;
148 |   // },
149 |   // getSequenceAtVersion: versionId => {
150 |   //   if (versionId === 2) {
151 |   //     return {
152 |   //       sequence: "thomaswashere"
153 |   //     };
154 |   //   } else if ((versionId = 3)) {
155 |   //     return {
156 |   //       features: [{ start: 4, end: 6 }],
157 |   //       sequence:
158 |   //         "GGGAAAagagagtgagagagtagagagagaccacaccccccGGGAAAagagagtgagagagtagagagagaccacaccccccGGGAAAagagagtgagagagtagagagagaccacaccccccGGGAAAagagagtgagagagtagagagagaccacacccccc"
159 |   //     };
160 |   //   } else {
161 |   //     console.error("we shouldn't be here...");
162 |   //     return {
163 |   //       sequence: "taa"
164 |   //     };
165 |   //   }
166 |   // },
167 |   // getVersionList: () => {
168 |   //   return [
169 |   //     {
170 |   //       dateChanged: "12/30/2211",
171 |   //       editedBy: "Nara",
172 |   //       // revisionType: "Sequence Deletion",
173 |   //       versionId: 2
174 |   //     },
175 |   //     {
176 |   //       dateChanged: "8/30/2211",
177 |   //       editedBy: "Ralph",
178 |   //       // revisionType: "Feature Edit",
179 |   //       versionId: 3
180 |   //     }
181 |   //   ];
182 |   // },
183 |   showMenuBar: true,
184 |   PropertiesProps: {
185 |     propertiesList: [
186 |       "general",
187 |       "features",
188 |       "parts",
189 |       "primers",
190 |       "translations",
191 |       "cutsites",
192 |       "orfs",
193 |       "genbank",
194 |     ],
195 |   },
196 |   ToolBarProps: {
197 |     toolList: [
198 |       "saveTool",
199 |       "downloadTool",
200 |       "importTool",
201 |       "undoTool",
202 |       "redoTool",
203 |       "cutsiteTool",
204 |       "featureTool",
205 |       "alignmentTool",
206 |       "versionHistoryTool",
207 |       // "oligoTool",
208 |       "orfTool",
209 |       // "viewTool",
210 |       "editTool",
211 |       "findTool",
212 |       "visibilityTool",
213 |       // "propertiesTool"
214 |     ],
215 |   },
216 | }); /* createDomNodeForMe will make a dom node for you and append it to the document.body*/
217 | 
218 | const isCircular = seqDataToUse && seqDataToUse.circular;
219 | editor.updateEditor({
220 |   sequenceData: seqDataToUse,
221 |   sequenceDataHistory: {}, //clear the sequenceDataHistory if there is any left over from a previous sequence
222 |   annotationVisibility: {
223 |     // features: false,
224 |     orfTranslations: false,
225 |   },
226 |   readOnly: false,
227 |   panelsShown: [
228 |     [
229 |       {
230 |         // fullScreen: true,
231 |         active: !!isCircular,
232 |         id: "circular",
233 |         name: "Circular Map",
234 |       },
235 |       {
236 |         id: "rail",
237 |         name: "Linear Map",
238 |         active: !isCircular,
239 |       },
240 |     ],
241 |     [
242 |       {
243 |         id: "sequence",
244 |         name: "Sequence Map",
245 |         active: true,
246 |       },
247 | 
248 |       {
249 |         id: "properties",
250 |         name: "Properties",
251 |       },
252 |     ],
253 |   ],
254 |   annotationsToSupport: {
255 |     features: true,
256 |     translations: true,
257 |     parts: true,
258 |     orfs: true,
259 |     cutsites: true,
260 |     primers: true,
261 |   },
262 | });
263 | 


--------------------------------------------------------------------------------
/CHANGELOG.md:
--------------------------------------------------------------------------------
  1 | ### Changelog
  2 | 
  3 | All notable changes to this project will be documented in this file. Dates are displayed in UTC.
  4 | 
  5 | Generated by [`auto-changelog`](https://github.com/CookPete/auto-changelog).
  6 | 
  7 | #### [v1.4.0](https://github.com/tnrich/ove-electron/compare/v1.4.0...v1.4.0)
  8 | 
  9 | - updating preload script to fix improper use of npm package [`0967dba`](https://github.com/tnrich/ove-electron/commit/0967dba2c58b1088b275fb1a74a3c7630930b6c1)
 10 | 
 11 | #### [v1.4.0](https://github.com/tnrich/ove-electron/compare/v1.3.0...v1.4.0)
 12 | 
 13 | > 3 August 2022
 14 | 
 15 | - updating deps [`d0363c7`](https://github.com/tnrich/ove-electron/commit/d0363c788dbda02e7bd12cf34179a31bffcd82c7)
 16 | - Updating CHANGELOG [`98900dd`](https://github.com/tnrich/ove-electron/commit/98900ddbc0b200888fcafaf9cc5b0f89928aee0a)
 17 | - bumping version [`66b118b`](https://github.com/tnrich/ove-electron/commit/66b118b3162fc0bb8e63895fabc8f45efcfbb264)
 18 | 
 19 | #### [v1.3.0](https://github.com/tnrich/ove-electron/compare/v1.2.8...v1.3.0)
 20 | 
 21 | > 5 January 2022
 22 | 
 23 | - bumping deps [`9d8f4e2`](https://github.com/tnrich/ove-electron/commit/9d8f4e27ba7629ed45b343c48fc7ae81583cfcf5)
 24 | - adding in build icons for appx [`5acaa41`](https://github.com/tnrich/ove-electron/commit/5acaa4135dea4831fa551d4167dd9054558a54fb)
 25 | - updating data [`494c832`](https://github.com/tnrich/ove-electron/commit/494c832719681962356f7ab9942d02f27000980d)
 26 | 
 27 | #### [v1.2.8](https://github.com/tnrich/ove-electron/compare/v1.2.6...v1.2.8)
 28 | 
 29 | > 24 September 2021
 30 | 
 31 | - adding encrypted appveyor env vars and removing env-cmd [`03231db`](https://github.com/tnrich/ove-electron/commit/03231db7e56b94293b2823630adea95f99eb5517)
 32 | - adding appveyor.yml [`d954224`](https://github.com/tnrich/ove-electron/commit/d954224217d21f63ce13961968aba4074f60149b)
 33 | - updating appveyor to only build windows [`777a8e0`](https://github.com/tnrich/ove-electron/commit/777a8e0a79776309e0f902704334aef0d670cd90)
 34 | 
 35 | #### [v1.2.6](https://github.com/tnrich/ove-electron/compare/v1.2.5...v1.2.6)
 36 | 
 37 | > 19 August 2021
 38 | 
 39 | - releasing with updated deps [`59bd94d`](https://github.com/tnrich/ove-electron/commit/59bd94d3cdf3c2d9045e0e1a911e761e74dfb735)
 40 | 
 41 | #### [v1.2.5](https://github.com/tnrich/ove-electron/compare/v1.2.4...v1.2.5)
 42 | 
 43 | > 28 July 2021
 44 | 
 45 | - adding back linux [`7544874`](https://github.com/tnrich/ove-electron/commit/75448746b98627a191347c987d4769cd06fa6b37)
 46 | - update readme [`953d4bf`](https://github.com/tnrich/ove-electron/commit/953d4bf24c50f457f37ee0b8f82ea886060d2f75)
 47 | 
 48 | #### [v1.2.4](https://github.com/tnrich/ove-electron/compare/v1.2.2...v1.2.4)
 49 | 
 50 | > 20 July 2021
 51 | 
 52 | - updating to allow .json files to be opened [`e9213ed`](https://github.com/tnrich/ove-electron/commit/e9213ed1009981c57a643aaec1667dd3b6bbc89a)
 53 | 
 54 | #### [v1.2.2](https://github.com/tnrich/ove-electron/compare/v1.2.1...v1.2.2)
 55 | 
 56 | > 8 July 2021
 57 | 
 58 | - adding in auto annotate addon [`bfa932c`](https://github.com/tnrich/ove-electron/commit/bfa932cd7a5706de6f2dc852a48f105e98759977)
 59 | - undoing test [`169a8ee`](https://github.com/tnrich/ove-electron/commit/169a8ee9ee6ad8c8db25c6ca1a7d7a6e17e8e289)
 60 | - zoink [`8b62b60`](https://github.com/tnrich/ove-electron/commit/8b62b6013bdf9423b3e7e93d54025a375a0538ae)
 61 | 
 62 | #### [v1.2.1](https://github.com/tnrich/ove-electron/compare/v1.1.1...v1.2.1)
 63 | 
 64 | > 28 April 2021
 65 | 
 66 | - updating readme and bumping version; commenting out --linux from build process for now (it still seems to generate an appImage even without that but just doesn't publish to snapcraft) [`b8d5e58`](https://github.com/tnrich/ove-electron/commit/b8d5e58f0da131f1ddca2c1939d4b297039d88c0)
 67 | 
 68 | #### [v1.1.1](https://github.com/tnrich/ove-electron/compare/v1.1.0...v1.1.1)
 69 | 
 70 | > 16 April 2021
 71 | 
 72 | #### [v1.1.0](https://github.com/tnrich/ove-electron/compare/v1.0.1...v1.1.0)
 73 | 
 74 | > 16 April 2021
 75 | 
 76 | - fixing broken saving functionality https://github.com/tnrich/ove-electron/issues/18; updating all deps; refactoring to use ipcRenderer correctly instead of deprecated electron.remote module [`fc35367`](https://github.com/tnrich/ove-electron/commit/fc353675e3286219c87d90bcadceac982c885aef)
 77 | - fixing modules issue; https://github.com/tnrich/ove-electron/issues/15#issuecomment-768174633 [`9dbad1a`](https://github.com/tnrich/ove-electron/commit/9dbad1a96c94317275136c8e4fe3975baae7b054)
 78 | - Updating CHANGELOG [`d8abbe7`](https://github.com/tnrich/ove-electron/commit/d8abbe766ccd8244db09c34e5751098344131863)
 79 | 
 80 | #### [v1.0.1](https://github.com/tnrich/ove-electron/compare/v1.0.0...v1.0.1)
 81 | 
 82 | > 27 January 2021
 83 | 
 84 | - updating readme and changelog [`ee02562`](https://github.com/tnrich/ove-electron/commit/ee02562b2ee5951bc39c2e2379881145b156a2aa)
 85 | - updating deps [`f01298f`](https://github.com/tnrich/ove-electron/commit/f01298f41ef0fb8e9741f2e3deead504c98e2474)
 86 | 
 87 | ### [v1.0.0](https://github.com/tnrich/ove-electron/compare/v0.1.10...v1.0.0)
 88 | 
 89 | > 26 January 2021
 90 | 
 91 | - fixing https://github.com/tnrich/ove-electron/issues/15; upgrading to electron 11 [`75c1a8f`](https://github.com/tnrich/ove-electron/commit/75c1a8fa95e1363e76fdce7a088167c2aaa28d39)
 92 | 
 93 | #### [v0.1.10](https://github.com/tnrich/ove-electron/compare/v0.1.9...v0.1.10)
 94 | 
 95 | > 30 July 2020
 96 | 
 97 | - adding loggin [`5fc739b`](https://github.com/tnrich/ove-electron/commit/5fc739b757c7a66542a53e7244246c9f8a28519b)
 98 | - tiny [`1409a08`](https://github.com/tnrich/ove-electron/commit/1409a086dfe14ce066c9ff23f32f34e975668087)
 99 | - trying out passing the window onOpen [`915467d`](https://github.com/tnrich/ove-electron/commit/915467dc4770eda0a2780de2cc76cbe96ce1d518)
100 | 
101 | #### [v0.1.9](https://github.com/tnrich/ove-electron/compare/v0.1.8...v0.1.9)
102 | 
103 | > 12 April 2020
104 | 
105 | - fixing new feature note create [`c0608d1`](https://github.com/tnrich/ove-electron/commit/c0608d12b05b2ef3720640b28ccfd33aded89719)
106 | 
107 | #### [v0.1.8](https://github.com/tnrich/ove-electron/compare/v0.1.6...v0.1.8)
108 | 
109 | > 10 April 2020
110 | 
111 | - updating to latest version of OVE [`8d76441`](https://github.com/tnrich/ove-electron/commit/8d76441d60c4529bfc32aea4c00cd30af1ebcd76)
112 | - updating package.json [`0670bc2`](https://github.com/tnrich/ove-electron/commit/0670bc2407cd931c260dd65e2d3d162d5ffcbb67)
113 | - bumping version [`32b0b35`](https://github.com/tnrich/ove-electron/commit/32b0b35039e0a47d538ce02b93f954f0d5316cc4)
114 | 
115 | #### [v0.1.6](https://github.com/tnrich/ove-electron/compare/v0.1.5...v0.1.6)
116 | 
117 | > 17 December 2019
118 | 
119 | - adding save functionality; bumping ove version to get multiple fixes-- drag fix -- window resize fix [`367ff69`](https://github.com/tnrich/ove-electron/commit/367ff69cc2cd664215f5f3d846b7eb85ee83e01e)
120 | - Update README.md [`8d278a8`](https://github.com/tnrich/ove-electron/commit/8d278a8845e5e589d22e10d69bf83822c905c2e9)
121 | - adding ability to publish linux releases [`3c7ab9a`](https://github.com/tnrich/ove-electron/commit/3c7ab9ab711b70785ec7ebd93825ed77fb9cffa8)
122 | 
123 | #### [v0.1.5](https://github.com/tnrich/ove-electron/compare/v0.1.4...v0.1.5)
124 | 
125 | > 30 September 2019
126 | 
127 | - tiny [`e445e5e`](https://github.com/tnrich/ove-electron/commit/e445e5ee30a3a0b7b09c590e8c047f9fe31f775c)
128 | 
129 | #### [v0.1.4](https://github.com/tnrich/ove-electron/compare/v0.1.3...v0.1.4)
130 | 
131 | > 23 September 2019
132 | 
133 | #### [v0.1.3](https://github.com/tnrich/ove-electron/compare/v0.1.2...v0.1.3)
134 | 
135 | > 23 September 2019
136 | 
137 | - adding dark mode, file reconfigure [`041ea40`](https://github.com/tnrich/ove-electron/commit/041ea40c10fd7c597ea7570b13890da030891489)
138 | - updating dark mode btn [`afff50d`](https://github.com/tnrich/ove-electron/commit/afff50d852fd22ce26587f6fcb7c205be6a03c7f)
139 | 
140 | #### [v0.1.2](https://github.com/tnrich/ove-electron/compare/v0.1.1...v0.1.2)
141 | 
142 | > 23 September 2019
143 | 
144 | #### [v0.1.1](https://github.com/tnrich/ove-electron/compare/v0.1.0...v0.1.1)
145 | 
146 | > 23 September 2019
147 | 
148 | - test release [`ff9c67c`](https://github.com/tnrich/ove-electron/commit/ff9c67c250185842e60827d79ef9e0b1a52cb5dd)
149 | 
150 | #### [v0.1.0](https://github.com/tnrich/ove-electron/compare/v0.0.7...v0.1.0)
151 | 
152 | > 23 September 2019
153 | 
154 | - removing unecessary popup; bumping to v0.1.0 [`d71ad89`](https://github.com/tnrich/ove-electron/commit/d71ad89773493b00fcc481d65cea84597ee2a477)
155 | - tiny [`a63be5d`](https://github.com/tnrich/ove-electron/commit/a63be5d7143b229aae9c1a0817ce5fc6132f9d62)
156 | 
157 | #### [v0.0.7](https://github.com/tnrich/ove-electron/compare/v0.0.6...v0.0.7)
158 | 
159 | > 23 September 2019
160 | 
161 | - bumping [`3576a79`](https://github.com/tnrich/ove-electron/commit/3576a791231fafcbafd3bbebc4b1442d3b52e5a3)
162 | 
163 | #### [v0.0.6](https://github.com/tnrich/ove-electron/compare/v0.0.5...v0.0.6)
164 | 
165 | > 23 September 2019
166 | 
167 | - adding mac notarization [`533916c`](https://github.com/tnrich/ove-electron/commit/533916c18084da34a95d94f7635f9a0f9cfdf481)
168 | - bumping version [`f9f0b6d`](https://github.com/tnrich/ove-electron/commit/f9f0b6d2fa98255f02170989415f9157d5d903a6)
169 | 
170 | #### [v0.0.5](https://github.com/tnrich/ove-electron/compare/v0.0.4...v0.0.5)
171 | 
172 | > 23 September 2019
173 | 
174 | - fixing issues with autoupdater [`90469b0`](https://github.com/tnrich/ove-electron/commit/90469b0a1f61df893883f540b97735a33483f0cb)
175 | - tiny [`57e5056`](https://github.com/tnrich/ove-electron/commit/57e50562bd827138ce25574288b85e51412df629)
176 | - updating gitignore [`f63fc8e`](https://github.com/tnrich/ove-electron/commit/f63fc8ef91983843a22aa31b7e6fb481046ec1f1)
177 | 
178 | #### [v0.0.4](https://github.com/tnrich/ove-electron/compare/v0.0.3...v0.0.4)
179 | 
180 | > 19 September 2019
181 | 
182 | #### [v0.0.3](https://github.com/tnrich/ove-electron/compare/0.0.2...v0.0.3)
183 | 
184 | > 19 September 2019
185 | 
186 | - setting up auto-updates [`0cba703`](https://github.com/tnrich/ove-electron/commit/0cba703d608b3d2827f1021c6ff885a61a633427)
187 | - adding readme; adding back preload; fixing initial open [`1ecfb41`](https://github.com/tnrich/ove-electron/commit/1ecfb4195feb4e69b36e42b0c994ad51c25bb507)
188 | 
189 | #### [0.0.2](https://github.com/tnrich/ove-electron/compare/0.0.1...0.0.2)
190 | 
191 | > 18 September 2019
192 | 
193 | - fixing import filename passing [`223b957`](https://github.com/tnrich/ove-electron/commit/223b957eaa9adad63693c739c978ddd857ff0376)
194 | - bumping version [`3e2d717`](https://github.com/tnrich/ove-electron/commit/3e2d7172c84ad87dc89196a8c48b97b73611ce71)
195 | - fixing initial open [`cc09899`](https://github.com/tnrich/ove-electron/commit/cc09899928a0f40ea980b4516a362f5466b06c0a)
196 | 
197 | #### 0.0.1
198 | 
199 | > 17 September 2019
200 | 
201 | - updating history [`54251c0`](https://github.com/tnrich/ove-electron/commit/54251c087b6852a576af49806a902880f10dfea0)
202 | - first commit [`9118369`](https://github.com/tnrich/ove-electron/commit/9118369b0c6f160ea8fb1f283ae79fc6456f2553)
203 | - updating dist [`8a8be66`](https://github.com/tnrich/ove-electron/commit/8a8be66a8a6e0df701647dac4f1cb2a187994ffb)
204 | 


--------------------------------------------------------------------------------
/pA11990.gb:
--------------------------------------------------------------------------------
  1 | LOCUS       pA11990                 6705 bp    DNA     circular  06-FEB-2019
  2 | FEATURES             Location/Qualifiers
  3 |      promoter        1..19
  4 |                      /label="T7 prom"
  5 |      misc_feature    19..46
  6 |                      /label="lacO reg"
  7 |      misc_feature    53..127
  8 |                      /label="RiboJ10"
  9 |      primer_bind     89..106
 10 |                      /label="oIG00007"
 11 |      primer          complement(94..127)
 12 |                      /label="pARZ4_backbone_new_REV"
 13 |      primer_bind     complement(94..122)
 14 |                      /label="oIG00006"
 15 |      RBS             128..169
 16 |                      /label="RiboJ10-RBSmax-F13557"
 17 |      CDS             170..1315
 18 |                      /label="F13557"
 19 |      misc_feature    170..1315
 20 |                      /label="insert synthon"
 21 |      primer_bind     424..469
 22 |                      /label="oIG00005"
 23 |      primer_bind     complement(424..453)
 24 |                      /label="oIG00008"
 25 |      primer          1316..1344
 26 |                      /label="pARZ4_backbone_new_FOR"
 27 |      terminator      1316..1516
 28 |                      /label="DT10"
 29 |      plasmid         1316..127
 30 |                      /label="backbone plasmid"
 31 |      misc_feature    1517..1556
 32 |                      /label="INS230"
 33 |      misc_structure  1557..1562
 34 |                      /label="linker"
 35 |      misc_feature    1563..1580
 36 |                      /label="6X His tag"
 37 |      terminator      1591..1719
 38 |                      /label="T7 term"
 39 |      rep_origin      1730..2174
 40 |                      /label="M13 origin"
 41 |      rep_origin      1747..2053
 42 |                      /label="f1 origin"
 43 |      CDS             complement(2278..3093)
 44 |                      /label="kan2 marker"
 45 |      rep_origin      3139..3821
 46 |                      /label="colE1 origin"
 47 |      terminator      3195..3237
 48 |                      /label="terminator"
 49 |      rep_origin      3199..3818
 50 |                      /label="pBR322 origin"
 51 |      terminator      3688..3728
 52 |                      /label="putative terminator"
 53 |      terminator      3796..3863
 54 |                      /label="putative terminator(1)"
 55 |      terminator      4419..4458
 56 |                      /label="putative terminator(2)"
 57 |      CDS             4456..4824
 58 |                      /label="uncharacterized protein"
 59 |      CDS             complement(4821..5177)
 60 |                      /label="tet"
 61 |      CDS             complement(5233..6315)
 62 |                      /label="lacI"
 63 |      5'UTR           complement(6316..6343)
 64 |                      /label="lacI 5' UTR"
 65 |      misc_feature    complement(6407..6670)
 66 |                      /label="tet(1)"
 67 | ORIGIN      
 68 |         1 TAATACGACT CACTATAGGG GAATTGTGAG CGGATAACAA TTCCCCTCTA GAAGCGCTCA
 69 |        61 ACGGGTGTGC TTCCCGTTCT GATGAGTCCG TGAGGACGAA AGCGCCTCTA CAAATAATTT
 70 |       121 TGTTTAAAGT AGAGCTCGCG TTTTTTAGCG ATAAGGAGGT TTTTTTTTTA TGCGTGTAGG
 71 |       181 AATCCCGACT GAAACCAAAA ACAATGAGTT CCGTGTTGCG ATTACCCCAG CGGGCGTGGC
 72 |       241 GGAACTGACC CGTCGTGGTC ACGAAGTGCT GATTCAGGCG GGTGCGGGCG AAGGTTCTGC
 73 |       301 GATTACCGAT GCAGATTTCA AAGCGGCAGG TGCCCAGTTG GTGGGCACCG CTGACCAGGT
 74 |       361 GTGGGCGGAT GCCGACCTGC TGTTGAAAGT CAAAGAACCG ATTGCCGCAG AGTATGGTCG
 75 |       421 TCTGCGTCAC GGTCAGATTC TGTTTACCTT TCTCCACCTG GCGGCAAGCC GTGCCTGTAC
 76 |       481 CGATGCCCTG CTGGATAGCG GCACGACCAG CATTGCCTAT GAAACCGTTC AGACCGCAGA
 77 |       541 TGGTGCCCTG CCGTTACTGG CACCGATGAG TGAAGTGGCG GGTCGACTTG CGGCACAAGT
 78 |       601 TGGTGCGTAT CACCTGATGC GTACCCAGGG CGGTCGTGGC GTGCTGATGG GCGGTGTTCC
 79 |       661 AGGAGTGGAA CCAGCGGATG TGGTTGTGAT TGGTGCTGGC ACCGCAGGCT ATAATGCGGC
 80 |       721 ACGCATTGCC AATGGTATGG GTGCGACGGT GACCGTTCTG GACATCAACA TTGATAAACT
 81 |       781 GCGTCAACTG GATGCCGAGT TTTGCGGTCG TATTCACACC CGTTATTCCA GTGCGTATGA
 82 |       841 ACTGGAAGGT GCGGTGAAGC GTGCGGATTT AGTTATTGGT GCCGTGCTGG TGCCAGGTGC
 83 |       901 GAAAGCCCCG AAACTGGTGA GCAACAGCCT GGTTGCCCAC ATGAAACCAG GTGCCGTTCT
 84 |       961 GGTGGACATT GCCATTGACC AGGGCGGTTG CTTTGAAGGC AGCCGCCCGA CCACCTATGA
 85 |      1021 CCATCCGACC TTCGCCGTTC ACGATACCCT GTTTTATTGC GTGGCGAATA TGCCAGCGTC
 86 |      1081 GGTGCCGAAA ACCAGCACCT ATGCCCTGAC CAACGCCACG ATGCCGTATG TTCTGGAACT
 87 |      1141 GGCGGACCAC GGCTGGCGTG CGGCGTGTCG AAGCAATCCA GCACTGGCGA AAGGTCTGAG
 88 |      1201 CACCCACGAA GGTGCTCTGC TGAGCGAACG GGTTGCAACC GATTTAGGCG TGCCGTTTAC
 89 |      1261 CGAACCAGCG TCTGTTCTGG CGGGCAGCGG CAGTCACCAT CATCATCACC ATTAATTCAG
 90 |      1321 CCAAAAAACT TAAGACCGCC GGTCTTGTCC ACTACCTTGC AGTAATGCGG TGGACAGGAT
 91 |      1381 CGGCGGTTTT CTTTTCTCTT CTCAATACAA ATGAAAGTAC ATAGAAATTA CTCGGTACCA
 92 |      1441 AATTCCAGAA AAGAGGCCTC CCGAAAGGGG GGCCTTTTTT CGTTTTGGTC CTCATAGGCA
 93 |      1501 ATACGATCGC ATGTCCGTTC TACCCTGGAC TTACAGTTGT CGGCTGAAAG CGAAACCTCG
 94 |      1561 AGCACCACCA CCACCACCAC TGAGATCCGG CTGCTAACAA AGCCCGAAAG GAAGCTGAGT
 95 |      1621 TGGCTGCTGC CACCGCTGAG CAATAACTAG CATAACCCCT TGGGGCCTCT AAACGGGTCT
 96 |      1681 TGAGGGGTTT TTTGCTGAAA GGAGGAACTA TATCCGGATG GCGAATGGGA CGCGCCCTGT
 97 |      1741 AGCGGCGCAT TAAGCGCGGC GGGTGTGGTG GTTACGCGCA GCGTGACCGC TACACTTGCC
 98 |      1801 AGCGCCCTAG CGCCCGCTCC TTTCGCTTTC TTCCCTTCCT TTCTCGCCAC GTTCGCCGGC
 99 |      1861 TTTCCCCGTC AAGCTCTAAA TCGGGGGCTC CCTTTAGGGT TCCGATTTAG TGCTTTACGG
100 |      1921 CACCTCGACC CCAAAAAACT TGATTAGGGT GATGGTTCAC GTAGTGGGCC ATCGCCCTGA
101 |      1981 TAGACGGTTT TTCGCCCTTT GACGTTGGAG TCCACGTTCT TTAATAGTGG ACTCTTGTTC
102 |      2041 CAAACTGGAA CAACACTCAA CCCTATCTCG GTCTATTCTT TTGATTTATA AGGGATTTTG
103 |      2101 CCGATTTCGG CCTATTGGTT AAAAAATGAG CTGATTTAAC AAAAATTTAA CGCGAATTTT
104 |      2161 AACAAAATAT TAACGTTTAC AATTTCAGGT GGCACTTTTC GGGGAAATGT GCGCGGAACC
105 |      2221 CCTATTTGTT TATTTTTCTA AATACATTCA AATATGTATC CGCTCATGAA TTAATTCTTA
106 |      2281 GAAAAACTCA TCGAGCATCA AATGAAACTG CAATTTATTC ATATCAGGAT TATCAATACC
107 |      2341 ATATTTTTGA AAAAGCCGTT TCTGTAATGA AGGAGAAAAC TCACCGAGGC AGTTCCATAG
108 |      2401 GATGGCAAGA TCCTGGTATC GGTCTGCGAT TCCGACTCGT CCAACATCAA TACAACCTAT
109 |      2461 TAATTTCCCC TCGTCAAAAA TAAGGTTATC AAGTGAGAAA TCACCATGAG TGACGACTGA
110 |      2521 ATCCGGTGAG AATGGCAAAA GTTTATGCAT TTCTTTCCAG ACTTGTTCAA CAGGCCAGCC
111 |      2581 ATTACGCTCG TCATCAAAAT CACTCGCATC AACCAAACCG TTATTCATTC GTGATTGCGC
112 |      2641 CTGAGCGAGA CGAAATACGC GATCGCTGTT AAAAGGACAA TTACAAACAG GAATCGAATG
113 |      2701 CAACCGGCGC AGGAACACTG CCAGCGCATC AACAATATTT TCACCTGAAT CAGGATATTC
114 |      2761 TTCTAATACC TGGAATGCTG TTTTCCCGGG GATCGCAGTG GTGAGTAACC ATGCATCATC
115 |      2821 AGGAGTACGG ATAAAATGCT TGATGGTCGG AAGAGGCATA AATTCCGTCA GCCAGTTTAG
116 |      2881 TCTGACCATC TCATCTGTAA CATCATTGGC AACGCTACCT TTGCCATGTT TCAGAAACAA
117 |      2941 CTCTGGCGCA TCGGGCTTCC CATACAATCG ATAGATTGTC GCACCTGATT GCCCGACATT
118 |      3001 ATCGCGAGCC CATTTATACC CATATAAATC AGCATCCATG TTGGAATTTA ATCGCGGCCT
119 |      3061 AGAGCAAGAC GTTTCCCGTT GAATATGGCT CATAACACCC CTTGTATTAC TGTTTATGTA
120 |      3121 AGCAGACAGT TTTATTGTTC ATGACCAAAA TCCCTTAACG TGAGTTTTCG TTCCACTGAG
121 |      3181 CGTCAGACCC CGTAGAAAAG ATCAAAGGAT CTTCTTGAGA TCCTTTTTTT CTGCGCGTAA
122 |      3241 TCTGCTGCTT GCAAACAAAA AAACCACCGC TACCAGCGGT GGTTTGTTTG CCGGATCAAG
123 |      3301 AGCTACCAAC TCTTTTTCCG AAGGTAACTG GCTTCAGCAG AGCGCAGATA CCAAATACTG
124 |      3361 TCCTTCTAGT GTAGCCGTAG TTAGGCCACC ACTTCAAGAA CTCTGTAGCA CCGCCTACAT
125 |      3421 ACCTCGCTCT GCTAATCCTG TTACCAGTGG CTGCTGCCAG TGGCGATAAG TCGTGTCTTA
126 |      3481 CCGGGTTGGA CTCAAGACGA TAGTTACCGG ATAAGGCGCA GCGGTCGGGC TGAACGGGGG
127 |      3541 GTTCGTGCAC ACAGCCCAGC TTGGAGCGAA CGACCTACAC CGAACTGAGA TACCTACAGC
128 |      3601 GTGAGCTATG AGAAAGCGCC ACGCTTCCCG AAGGGAGAAA GGCGGACAGG TATCCGGTAA
129 |      3661 GCGGCAGGGT CGGAACAGGA GAGCGCACGA GGGAGCTTCC AGGGGGAAAC GCCTGGTATC
130 |      3721 TTTATAGTCC TGTCGGGTTT CGCCACCTCT GACTTGAGCG TCGATTTTTG TGATGCTCGT
131 |      3781 CAGGGGGGCG GAGCCTATGG AAAAACGCCA GCAACGCGGC CTTTTTACGG TTCCTGGCCT
132 |      3841 TTTGCTGGCC TTTTGCTCAC ATGTTCTTTC CTGCGTTATC CCCTGATTCT GTGGATAACC
133 |      3901 GTATTACCGC CTTTGAGTGA GCTGATACCG CTCGCCGCAG CCGAACGACC GAGCGCAGCG
134 |      3961 AGTCAGTGAG CGAGGAAGCG GAAGAGCGCC TGATGCGGTA TTTTCTCCTT ACGCATCTGT
135 |      4021 GCGGTATTTC ACACCGCATA TATGGTGCAC TCTCAGTACA ATCTGCTCTG ATGCCGCATA
136 |      4081 GTTAAGCCAG TATACACTCC GCTATCGCTA CGTGACTGGG TCATGGCTGC GCCCCGACAC
137 |      4141 CCGCCAACAC CCGCTGACGC GCCCTGACGG GCTTGTCTGC TCCCGGCATC CGCTTACAGA
138 |      4201 CAAGCTGTGA CCGTCTCCGG GAGCTGCATG TGTCAGAGGT TTTCACCGTC ATCACCGAAA
139 |      4261 CGCGCGAGGC AGCTGCGGTA AAGCTCATCA GCGTGGTCGT GAAGCGATTC ACAGATGTCT
140 |      4321 GCCTGTTCAT CCGCGTCCAG CTCGTTGAGT TTCTCCAGAA GCGTTAATGT CTGGCTTCTG
141 |      4381 ATAAAGCGGG CCATGTTAAG GGCGGTTTTT TCCTGTTTGG TCACTGATGC CTCCGTGTAA
142 |      4441 GGGGGATTTC TGTTCATGGG GGTAATGATA CCGATGAAAC GAGAGAGGAT GCTCACGATA
143 |      4501 CGGGTTACTG ATGATGAACA TGCCCGGTTA CTGGAACGTT GTGAGGGTAA ACAACTGGCG
144 |      4561 GTATGGATGC GGCGGGACCA GAGAAAAATC ACTCAGGGTC AATGCCAGCG CTTCGTTAAT
145 |      4621 ACAGATGTAG GTGTTCCACA GGGTAGCCAG CAGCATCCTG CGATGCAGAT CCGGAACATA
146 |      4681 ATGGTGCAGG GCGCTGACTT CCGCGTTTCC AGACTTTACG AAACACGGAA ACCGAAGACC
147 |      4741 ATTCATGTTG TTGCTCAGGT CGCAGACGTT TTGCAGCAGC AGTCGCTTCA CGTTCGCTCG
148 |      4801 CGTATCGGTG ATTCATTCTG CTAACCAGTA AGGCAACCCC GCCAGCCTAG CCGGGTCCTC
149 |      4861 AACGACAGGA GCACGATCAT GCGCACCCGT GGGGCCGCCA TGCCGGCGAT AATGGCCTGC
150 |      4921 TTCTCGCCGA AACGTTTGGT GGCGGGACCA GTGACGAAGG CTTGAGCGAG GGCGTGCAAG
151 |      4981 ATTCCGAATA CCGCAAGCGA CAGGCCGATC ATCGTCGCGC TCCAGCGAAA GCGGTCCTCG
152 |      5041 CCGAAAATGA CCCAGAGCGC TGCCGGCACC TGTCCTACGA GTTGCATGAT AAAGAAGACA
153 |      5101 GTCATAAGTG CGGCGACGAT AGTCATGCCC CGCGCCCACC GGAAGGAGCT GACTGGGTTG
154 |      5161 AAGGCTCTCA AGGGCATCGG TCGAGATCCC GGTGCCTAAT GAGTGAGCTA ACTTACATTA
155 |      5221 ATTGCGTTGC GCTCACTGCC CGCTTTCCAG TCGGGAAACC TGTCGTGCCA GCTGCATTAA
156 |      5281 TGAATCGGCC AACGCGCGGG GAGAGGCGGT TTGCGTATTG GGCGCCAGGG TGGTTTTTCT
157 |      5341 TTTCACCAGT GAGACGGGCA ACAGCTGATT GCCCTTCACC GCCTGGCCCT GAGAGAGTTG
158 |      5401 CAGCAAGCGG TCCACGCTGG TTTGCCCCAG CAGGCGAAAA TCCTGTTTGA TGGTGGTTAA
159 |      5461 CGGCGGGATA TAACATGAGC TGTCTTCGGT ATCGTCGTAT CCCACTACCG AGATGTCCGC
160 |      5521 ACCAACGCGC AGCCCGGACT CGGTAATGGC GCGCATTGCG CCCAGCGCCA TCTGATCGTT
161 |      5581 GGCAACCAGC ATCGCAGTGG GAACGATGCC CTCATTCAGC ATTTGCATGG TTTGTTGAAA
162 |      5641 ACCGGACATG GCACTCCAGT CGCCTTCCCG TTCCGCTATC GGCTGAATTT GATTGCGAGT
163 |      5701 GAGATATTTA TGCCAGCCAG CCAGACGCAG ACGCGCCGAG ACAGAACTTA ATGGGCCCGC
164 |      5761 TAACAGCGCG ATTTGCTGGT GACCCAATGC GACCAGATGC TCCACGCCCA GTCGCGTACC
165 |      5821 GTCTTCATGG GAGAAAATAA TACTGTTGAT GGGTGTCTGG TCAGAGACAT CAAGAAATAA
166 |      5881 CGCCGGAACA TTAGTGCAGG CAGCTTCCAC AGCAATGGCA TCCTGGTCAT CCAGCGGATA
167 |      5941 GTTAATGATC AGCCCACTGA CGCGTTGCGC GAGAAGATTG TGCACCGCCG CTTTACAGGC
168 |      6001 TTCGACGCCG CTTCGTTCTA CCATCGACAC CACCACGCTG GCACCCAGTT GATCGGCGCG
169 |      6061 AGATTTAATC GCCGCGACAA TTTGCGACGG CGCGTGCAGG GCCAGACTGG AGGTGGCAAC
170 |      6121 GCCAATCAGC AACGACTGTT TGCCCGCCAG TTGTTGTGCC ACGCGGTTGG GAATGTAATT
171 |      6181 CAGCTCCGCC ATCGCCGCTT CCACTTTTTC CCGCGTTTTC GCAGAAACGT GGCTGGCCTG
172 |      6241 GTTCACCACG CGGGAAACGG TCTGATAAGA GACACCGGCA TACTCTGCGA CATCGTATAA
173 |      6301 CGTTACTGGT TTCACATTCA CCACCCTGAA TTGACTCTCT TCCGGGCGCT ATCATGCCAT
174 |      6361 ACCGCGAAAG GTTTTGCGCC ATTCGATGGT GTCCGGGATC TCGACGCTCT CCCTTATGCG
175 |      6421 ACTCCTGCAT TAGGAAGCAG CCCAGTAGTA GGTTGAGGCC GTTGAGCACC GCCGCCGCAA
176 |      6481 GGAATGGTGC ATGCAAGGAG ATGGCGCCCA ACAGTCCCCC GGCCACGGGG CCTGCCACCA
177 |      6541 TACCCACGCC GAAACAAGCG CTCATGAGCC CGAAGTGGCG AGCCCGATCT TCCCCATCGG
178 |      6601 TGATGTCGGC GATATAGGCG CCAGCAACCG CACCTGTGGC GCCGGTGATG CCGGCCACGA
179 |      6661 TGCGTCCGGC GTAGAGGATC GAGATCGATC TCGATCCCGC GAAAT 
180 | //


--------------------------------------------------------------------------------
/pA11990 copy.gb:
--------------------------------------------------------------------------------
  1 | LOCUS       pA11990                 6705 bp    DNA     circular  06-FEB-2019
  2 | FEATURES             Location/Qualifiers
  3 |      promoter        1..19
  4 |                      /label="T7 prom"
  5 |      misc_feature    19..46
  6 |                      /label="lacO reg"
  7 |      misc_feature    53..127
  8 |                      /label="RiboJ10"
  9 |      primer_bind     89..106
 10 |                      /label="oIG00007"
 11 |      primer          complement(94..127)
 12 |                      /label="pARZ4_backbone_new_REV"
 13 |      primer_bind     complement(94..122)
 14 |                      /label="oIG00006"
 15 |      RBS             128..169
 16 |                      /label="RiboJ10-RBSmax-F13557"
 17 |      CDS             170..1315
 18 |                      /label="F13557"
 19 |      misc_feature    170..1315
 20 |                      /label="insert synthon"
 21 |      primer_bind     424..469
 22 |                      /label="oIG00005"
 23 |      primer_bind     complement(424..453)
 24 |                      /label="oIG00008"
 25 |      primer          1316..1344
 26 |                      /label="pARZ4_backbone_new_FOR"
 27 |      terminator      1316..1516
 28 |                      /label="DT10"
 29 |      plasmid         1316..127
 30 |                      /label="backbone plasmid"
 31 |      misc_feature    1517..1556
 32 |                      /label="INS230"
 33 |      misc_structure  1557..1562
 34 |                      /label="linker"
 35 |      misc_feature    1563..1580
 36 |                      /label="6X His tag"
 37 |      terminator      1591..1719
 38 |                      /label="T7 term"
 39 |      rep_origin      1730..2174
 40 |                      /label="M13 origin"
 41 |      rep_origin      1747..2053
 42 |                      /label="f1 origin"
 43 |      CDS             complement(2278..3093)
 44 |                      /label="kan2 marker"
 45 |      rep_origin      3139..3821
 46 |                      /label="colE1 origin"
 47 |      terminator      3195..3237
 48 |                      /label="terminator"
 49 |      rep_origin      3199..3818
 50 |                      /label="pBR322 origin"
 51 |      terminator      3688..3728
 52 |                      /label="putative terminator"
 53 |      terminator      3796..3863
 54 |                      /label="putative terminator(1)"
 55 |      terminator      4419..4458
 56 |                      /label="putative terminator(2)"
 57 |      CDS             4456..4824
 58 |                      /label="uncharacterized protein"
 59 |      CDS             complement(4821..5177)
 60 |                      /label="tet"
 61 |      CDS             complement(5233..6315)
 62 |                      /label="lacI"
 63 |      5'UTR           complement(6316..6343)
 64 |                      /label="lacI 5' UTR"
 65 |      misc_feature    complement(6407..6670)
 66 |                      /label="tet(1)"
 67 | ORIGIN      
 68 |         1 TAATACGACT CACTATAGGG GAATTGTGAG CGGATAACAA TTCCCCTCTA GAAGCGCTCA
 69 |        61 ACGGGTGTGC TTCCCGTTCT GATGAGTCCG TGAGGACGAA AGCGCCTCTA CAAATAATTT
 70 |       121 TGTTTAAAGT AGAGCTCGCG TTTTTTAGCG ATAAGGAGGT TTTTTTTTTA TGCGTGTAGG
 71 |       181 AATCCCGACT GAAACCAAAA ACAATGAGTT CCGTGTTGCG ATTACCCCAG CGGGCGTGGC
 72 |       241 GGAACTGACC CGTCGTGGTC ACGAAGTGCT GATTCAGGCG GGTGCGGGCG AAGGTTCTGC
 73 |       301 GATTACCGAT GCAGATTTCA AAGCGGCAGG TGCCCAGTTG GTGGGCACCG CTGACCAGGT
 74 |       361 GTGGGCGGAT GCCGACCTGC TGTTGAAAGT CAAAGAACCG ATTGCCGCAG AGTATGGTCG
 75 |       421 TCTGCGTCAC GGTCAGATTC TGTTTACCTT TCTCCACCTG GCGGCAAGCC GTGCCTGTAC
 76 |       481 CGATGCCCTG CTGGATAGCG GCACGACCAG CATTGCCTAT GAAACCGTTC AGACCGCAGA
 77 |       541 TGGTGCCCTG CCGTTACTGG CACCGATGAG TGAAGTGGCG GGTCGACTTG CGGCACAAGT
 78 |       601 TGGTGCGTAT CACCTGATGC GTACCCAGGG CGGTCGTGGC GTGCTGATGG GCGGTGTTCC
 79 |       661 AGGAGTGGAA CCAGCGGATG TGGTTGTGAT TGGTGCTGGC ACCGCAGGCT ATAATGCGGC
 80 |       721 ACGCATTGCC AATGGTATGG GTGCGACGGT GACCGTTCTG GACATCAACA TTGATAAACT
 81 |       781 GCGTCAACTG GATGCCGAGT TTTGCGGTCG TATTCACACC CGTTATTCCA GTGCGTATGA
 82 |       841 ACTGGAAGGT GCGGTGAAGC GTGCGGATTT AGTTATTGGT GCCGTGCTGG TGCCAGGTGC
 83 |       901 GAAAGCCCCG AAACTGGTGA GCAACAGCCT GGTTGCCCAC ATGAAACCAG GTGCCGTTCT
 84 |       961 GGTGGACATT GCCATTGACC AGGGCGGTTG CTTTGAAGGC AGCCGCCCGA CCACCTATGA
 85 |      1021 CCATCCGACC TTCGCCGTTC ACGATACCCT GTTTTATTGC GTGGCGAATA TGCCAGCGTC
 86 |      1081 GGTGCCGAAA ACCAGCACCT ATGCCCTGAC CAACGCCACG ATGCCGTATG TTCTGGAACT
 87 |      1141 GGCGGACCAC GGCTGGCGTG CGGCGTGTCG AAGCAATCCA GCACTGGCGA AAGGTCTGAG
 88 |      1201 CACCCACGAA GGTGCTCTGC TGAGCGAACG GGTTGCAACC GATTTAGGCG TGCCGTTTAC
 89 |      1261 CGAACCAGCG TCTGTTCTGG CGGGCAGCGG CAGTCACCAT CATCATCACC ATTAATTCAG
 90 |      1321 CCAAAAAACT TAAGACCGCC GGTCTTGTCC ACTACCTTGC AGTAATGCGG TGGACAGGAT
 91 |      1381 CGGCGGTTTT CTTTTCTCTT CTCAATACAA ATGAAAGTAC ATAGAAATTA CTCGGTACCA
 92 |      1441 AATTCCAGAA AAGAGGCCTC CCGAAAGGGG GGCCTTTTTT CGTTTTGGTC CTCATAGGCA
 93 |      1501 ATACGATCGC ATGTCCGTTC TACCCTGGAC TTACAGTTGT CGGCTGAAAG CGAAACCTCG
 94 |      1561 AGCACCACCA CCACCACCAC TGAGATCCGG CTGCTAACAA AGCCCGAAAG GAAGCTGAGT
 95 |      1621 TGGCTGCTGC CACCGCTGAG CAATAACTAG CATAACCCCT TGGGGCCTCT AAACGGGTCT
 96 |      1681 TGAGGGGTTT TTTGCTGAAA GGAGGAACTA TATCCGGATG GCGAATGGGA CGCGCCCTGT
 97 |      1741 AGCGGCGCAT TAAGCGCGGC GGGTGTGGTG GTTACGCGCA GCGTGACCGC TACACTTGCC
 98 |      1801 AGCGCCCTAG CGCCCGCTCC TTTCGCTTTC TTCCCTTCCT TTCTCGCCAC GTTCGCCGGC
 99 |      1861 TTTCCCCGTC AAGCTCTAAA TCGGGGGCTC CCTTTAGGGT TCCGATTTAG TGCTTTACGG
100 |      1921 CACCTCGACC CCAAAAAACT TGATTAGGGT GATGGTTCAC GTAGTGGGCC ATCGCCCTGA
101 |      1981 TAGACGGTTT TTCGCCCTTT GACGTTGGAG TCCACGTTCT TTAATAGTGG ACTCTTGTTC
102 |      2041 CAAACTGGAA CAACACTCAA CCCTATCTCG GTCTATTCTT TTGATTTATA AGGGATTTTG
103 |      2101 CCGATTTCGG CCTATTGGTT AAAAAATGAG CTGATTTAAC AAAAATTTAA CGCGAATTTT
104 |      2161 AACAAAATAT TAACGTTTAC AATTTCAGGT GGCACTTTTC GGGGAAATGT GCGCGGAACC
105 |      2221 CCTATTTGTT TATTTTTCTA AATACATTCA AATATGTATC CGCTCATGAA TTAATTCTTA
106 |      2281 GAAAAACTCA TCGAGCATCA AATGAAACTG CAATTTATTC ATATCAGGAT TATCAATACC
107 |      2341 ATATTTTTGA AAAAGCCGTT TCTGTAATGA AGGAGAAAAC TCACCGAGGC AGTTCCATAG
108 |      2401 GATGGCAAGA TCCTGGTATC GGTCTGCGAT TCCGACTCGT CCAACATCAA TACAACCTAT
109 |      2461 TAATTTCCCC TCGTCAAAAA TAAGGTTATC AAGTGAGAAA TCACCATGAG TGACGACTGA
110 |      2521 ATCCGGTGAG AATGGCAAAA GTTTATGCAT TTCTTTCCAG ACTTGTTCAA CAGGCCAGCC
111 |      2581 ATTACGCTCG TCATCAAAAT CACTCGCATC AACCAAACCG TTATTCATTC GTGATTGCGC
112 |      2641 CTGAGCGAGA CGAAATACGC GATCGCTGTT AAAAGGACAA TTACAAACAG GAATCGAATG
113 |      2701 CAACCGGCGC AGGAACACTG CCAGCGCATC AACAATATTT TCACCTGAAT CAGGATATTC
114 |      2761 TTCTAATACC TGGAATGCTG TTTTCCCGGG GATCGCAGTG GTGAGTAACC ATGCATCATC
115 |      2821 AGGAGTACGG ATAAAATGCT TGATGGTCGG AAGAGGCATA AATTCCGTCA GCCAGTTTAG
116 |      2881 TCTGACCATC TCATCTGTAA CATCATTGGC AACGCTACCT TTGCCATGTT TCAGAAACAA
117 |      2941 CTCTGGCGCA TCGGGCTTCC CATACAATCG ATAGATTGTC GCACCTGATT GCCCGACATT
118 |      3001 ATCGCGAGCC CATTTATACC CATATAAATC AGCATCCATG TTGGAATTTA ATCGCGGCCT
119 |      3061 AGAGCAAGAC GTTTCCCGTT GAATATGGCT CATAACACCC CTTGTATTAC TGTTTATGTA
120 |      3121 AGCAGACAGT TTTATTGTTC ATGACCAAAA TCCCTTAACG TGAGTTTTCG TTCCACTGAG
121 |      3181 CGTCAGACCC CGTAGAAAAG ATCAAAGGAT CTTCTTGAGA TCCTTTTTTT CTGCGCGTAA
122 |      3241 TCTGCTGCTT GCAAACAAAA AAACCACCGC TACCAGCGGT GGTTTGTTTG CCGGATCAAG
123 |      3301 AGCTACCAAC TCTTTTTCCG AAGGTAACTG GCTTCAGCAG AGCGCAGATA CCAAATACTG
124 |      3361 TCCTTCTAGT GTAGCCGTAG TTAGGCCACC ACTTCAAGAA CTCTGTAGCA CCGCCTACAT
125 |      3421 ACCTCGCTCT GCTAATCCTG TTACCAGTGG CTGCTGCCAG TGGCGATAAG TCGTGTCTTA
126 |      3481 CCGGGTTGGA CTCAAGACGA TAGTTACCGG ATAAGGCGCA GCGGTCGGGC TGAACGGGGG
127 |      3541 GTTCGTGCAC ACAGCCCAGC TTGGAGCGAA CGACCTACAC CGAACTGAGA TACCTACAGC
128 |      3601 GTGAGCTATG AGAAAGCGCC ACGCTTCCCG AAGGGAGAAA GGCGGACAGG TATCCGGTAA
129 |      3661 GCGGCAGGGT CGGAACAGGA GAGCGCACGA GGGAGCTTCC AGGGGGAAAC GCCTGGTATC
130 |      3721 TTTATAGTCC TGTCGGGTTT CGCCACCTCT GACTTGAGCG TCGATTTTTG TGATGCTCGT
131 |      3781 CAGGGGGGCG GAGCCTATGG AAAAACGCCA GCAACGCGGC CTTTTTACGG TTCCTGGCCT
132 |      3841 TTTGCTGGCC TTTTGCTCAC ATGTTCTTTC CTGCGTTATC CCCTGATTCT GTGGATAACC
133 |      3901 GTATTACCGC CTTTGAGTGA GCTGATACCG CTCGCCGCAG CCGAACGACC GAGCGCAGCG
134 |      3961 AGTCAGTGAG CGAGGAAGCG GAAGAGCGCC TGATGCGGTA TTTTCTCCTT ACGCATCTGT
135 |      4021 GCGGTATTTC ACACCGCATA TATGGTGCAC TCTCAGTACA ATCTGCTCTG ATGCCGCATA
136 |      4081 GTTAAGCCAG TATACACTCC GCTATCGCTA CGTGACTGGG TCATGGCTGC GCCCCGACAC
137 |      4141 CCGCCAACAC CCGCTGACGC GCCCTGACGG GCTTGTCTGC TCCCGGCATC CGCTTACAGA
138 |      4201 CAAGCTGTGA CCGTCTCCGG GAGCTGCATG TGTCAGAGGT TTTCACCGTC ATCACCGAAA
139 |      4261 CGCGCGAGGC AGCTGCGGTA AAGCTCATCA GCGTGGTCGT GAAGCGATTC ACAGATGTCT
140 |      4321 GCCTGTTCAT CCGCGTCCAG CTCGTTGAGT TTCTCCAGAA GCGTTAATGT CTGGCTTCTG
141 |      4381 ATAAAGCGGG CCATGTTAAG GGCGGTTTTT TCCTGTTTGG TCACTGATGC CTCCGTGTAA
142 |      4441 GGGGGATTTC TGTTCATGGG GGTAATGATA CCGATGAAAC GAGAGAGGAT GCTCACGATA
143 |      4501 CGGGTTACTG ATGATGAACA TGCCCGGTTA CTGGAACGTT GTGAGGGTAA ACAACTGGCG
144 |      4561 GTATGGATGC GGCGGGACCA GAGAAAAATC ACTCAGGGTC AATGCCAGCG CTTCGTTAAT
145 |      4621 ACAGATGTAG GTGTTCCACA GGGTAGCCAG CAGCATCCTG CGATGCAGAT CCGGAACATA
146 |      4681 ATGGTGCAGG GCGCTGACTT CCGCGTTTCC AGACTTTACG AAACACGGAA ACCGAAGACC
147 |      4741 ATTCATGTTG TTGCTCAGGT CGCAGACGTT TTGCAGCAGC AGTCGCTTCA CGTTCGCTCG
148 |      4801 CGTATCGGTG ATTCATTCTG CTAACCAGTA AGGCAACCCC GCCAGCCTAG CCGGGTCCTC
149 |      4861 AACGACAGGA GCACGATCAT GCGCACCCGT GGGGCCGCCA TGCCGGCGAT AATGGCCTGC
150 |      4921 TTCTCGCCGA AACGTTTGGT GGCGGGACCA GTGACGAAGG CTTGAGCGAG GGCGTGCAAG
151 |      4981 ATTCCGAATA CCGCAAGCGA CAGGCCGATC ATCGTCGCGC TCCAGCGAAA GCGGTCCTCG
152 |      5041 CCGAAAATGA CCCAGAGCGC TGCCGGCACC TGTCCTACGA GTTGCATGAT AAAGAAGACA
153 |      5101 GTCATAAGTG CGGCGACGAT AGTCATGCCC CGCGCCCACC GGAAGGAGCT GACTGGGTTG
154 |      5161 AAGGCTCTCA AGGGCATCGG TCGAGATCCC GGTGCCTAAT GAGTGAGCTA ACTTACATTA
155 |      5221 ATTGCGTTGC GCTCACTGCC CGCTTTCCAG TCGGGAAACC TGTCGTGCCA GCTGCATTAA
156 |      5281 TGAATCGGCC AACGCGCGGG GAGAGGCGGT TTGCGTATTG GGCGCCAGGG TGGTTTTTCT
157 |      5341 TTTCACCAGT GAGACGGGCA ACAGCTGATT GCCCTTCACC GCCTGGCCCT GAGAGAGTTG
158 |      5401 CAGCAAGCGG TCCACGCTGG TTTGCCCCAG CAGGCGAAAA TCCTGTTTGA TGGTGGTTAA
159 |      5461 CGGCGGGATA TAACATGAGC TGTCTTCGGT ATCGTCGTAT CCCACTACCG AGATGTCCGC
160 |      5521 ACCAACGCGC AGCCCGGACT CGGTAATGGC GCGCATTGCG CCCAGCGCCA TCTGATCGTT
161 |      5581 GGCAACCAGC ATCGCAGTGG GAACGATGCC CTCATTCAGC ATTTGCATGG TTTGTTGAAA
162 |      5641 ACCGGACATG GCACTCCAGT CGCCTTCCCG TTCCGCTATC GGCTGAATTT GATTGCGAGT
163 |      5701 GAGATATTTA TGCCAGCCAG CCAGACGCAG ACGCGCCGAG ACAGAACTTA ATGGGCCCGC
164 |      5761 TAACAGCGCG ATTTGCTGGT GACCCAATGC GACCAGATGC TCCACGCCCA GTCGCGTACC
165 |      5821 GTCTTCATGG GAGAAAATAA TACTGTTGAT GGGTGTCTGG TCAGAGACAT CAAGAAATAA
166 |      5881 CGCCGGAACA TTAGTGCAGG CAGCTTCCAC AGCAATGGCA TCCTGGTCAT CCAGCGGATA
167 |      5941 GTTAATGATC AGCCCACTGA CGCGTTGCGC GAGAAGATTG TGCACCGCCG CTTTACAGGC
168 |      6001 TTCGACGCCG CTTCGTTCTA CCATCGACAC CACCACGCTG GCACCCAGTT GATCGGCGCG
169 |      6061 AGATTTAATC GCCGCGACAA TTTGCGACGG CGCGTGCAGG GCCAGACTGG AGGTGGCAAC
170 |      6121 GCCAATCAGC AACGACTGTT TGCCCGCCAG TTGTTGTGCC ACGCGGTTGG GAATGTAATT
171 |      6181 CAGCTCCGCC ATCGCCGCTT CCACTTTTTC CCGCGTTTTC GCAGAAACGT GGCTGGCCTG
172 |      6241 GTTCACCACG CGGGAAACGG TCTGATAAGA GACACCGGCA TACTCTGCGA CATCGTATAA
173 |      6301 CGTTACTGGT TTCACATTCA CCACCCTGAA TTGACTCTCT TCCGGGCGCT ATCATGCCAT
174 |      6361 ACCGCGAAAG GTTTTGCGCC ATTCGATGGT GTCCGGGATC TCGACGCTCT CCCTTATGCG
175 |      6421 ACTCCTGCAT TAGGAAGCAG CCCAGTAGTA GGTTGAGGCC GTTGAGCACC GCCGCCGCAA
176 |      6481 GGAATGGTGC ATGCAAGGAG ATGGCGCCCA ACAGTCCCCC GGCCACGGGG CCTGCCACCA
177 |      6541 TACCCACGCC GAAACAAGCG CTCATGAGCC CGAAGTGGCG AGCCCGATCT TCCCCATCGG
178 |      6601 TGATGTCGGC GATATAGGCG CCAGCAACCG CACCTGTGGC GCCGGTGATG CCGGCCACGA
179 |      6661 TGCGTCCGGC GTAGAGGATC GAGATCGATC TCGATCCCGC GAAAT 
180 | //


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