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202 </ul>
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203
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204 <h4 class="text-gray-light text-normal text-mono f5 mb-2 border-lg-top pt-lg-3">Learn & contribute</h4>
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205 <ul class="list-style-none mb-3">
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206 <li class="edge-item-fix"><a href="/topics" class="py-2 lh-condensed-ultra d-block link-gray no-underline f5" data-ga-click="(Logged out) Header, go to Topics">Topics</a></li>
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207 <li class="edge-item-fix"><a href="/collections" class="py-2 lh-condensed-ultra d-block link-gray no-underline f5" data-ga-click="(Logged out) Header, go to Collections">Collections</a></li>
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208 <li class="edge-item-fix"><a href="/trending" class="py-2 lh-condensed-ultra d-block link-gray no-underline f5" data-ga-click="(Logged out) Header, go to Trending">Trending</a></li>
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209 <li class="edge-item-fix"><a href="https://lab.github.com/" class="py-2 lh-condensed-ultra d-block link-gray no-underline f5" data-ga-click="(Logged out) Header, go to Learning lab">Learning Lab</a></li>
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210 <li class="edge-item-fix"><a href="https://opensource.guide" class="py-2 lh-condensed-ultra d-block link-gray no-underline f5" data-ga-click="(Logged out) Header, go to Open source guides">Open source guides</a></li>
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211 </ul>
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212
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213 <h4 class="text-gray-light text-normal text-mono f5 mb-2 border-lg-top pt-lg-3">Connect with others</h4>
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214 <ul class="list-style-none mb-0">
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215 <li class="edge-item-fix"><a href="https://github.com/events" class="py-2 lh-condensed-ultra d-block link-gray no-underline f5" data-ga-click="(Logged out) Header, go to Events">Events</a></li>
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216 <li class="edge-item-fix"><a href="https://github.community" class="py-2 lh-condensed-ultra d-block link-gray no-underline f5" data-ga-click="(Logged out) Header, go to Community forum">Community forum</a></li>
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217 <li class="edge-item-fix"><a href="https://education.github.com" class="py-2 pb-0 lh-condensed-ultra d-block link-gray no-underline f5" data-ga-click="(Logged out) Header, go to GitHub Education">GitHub Education</a></li>
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218 </ul>
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219 </div>
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220 </details>
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221 </li>
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222
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223 <li class="border-bottom border-lg-bottom-0 mr-0 mr-lg-3">
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224 <a href="/marketplace" class="HeaderMenu-link no-underline py-3 d-block d-lg-inline-block" data-ga-click="(Logged out) Header, go to Marketplace">Marketplace</a>
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225 </li>
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226
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227 <li class="d-block d-lg-flex flex-lg-nowrap flex-lg-items-center border-bottom border-lg-bottom-0 mr-0 mr-lg-3 edge-item-fix position-relative flex-wrap flex-justify-between d-flex flex-items-center ">
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228 <details class="HeaderMenu-details details-overlay details-reset width-full">
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229 <summary class="HeaderMenu-summary HeaderMenu-link px-0 py-3 border-0 no-wrap d-block d-lg-inline-block">
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230 Pricing
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231 <svg x="0px" y="0px" viewBox="0 0 14 8" xml:space="preserve" fill="none" class="icon-chevon-down-mktg position-absolute position-lg-relative">
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232 <path d="M1,1l6.2,6L13,1"></path>
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233 </svg>
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234 </summary>
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235
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236 <div class="dropdown-menu flex-auto rounded-1 bg-white px-0 pt-2 pb-4 mt-0 p-lg-4 position-relative position-lg-absolute left-0 left-lg-n4">
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237 <a href="/pricing" class="pb-2 lh-condensed-ultra d-block link-gray-dark no-underline h5 Bump-link--hover" data-ga-click="(Logged out) Header, go to Pricing">Plans <span class="Bump-link-symbol float-right text-normal text-gray-light">→</span></a>
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238
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239 <ul class="list-style-none mb-3">
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240 <li class="edge-item-fix"><a href="/pricing#feature-comparison" class="py-2 lh-condensed-ultra d-block link-gray no-underline f5" data-ga-click="(Logged out) Header, go to Compare plans">Compare plans</a></li>
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241 <li class="edge-item-fix"><a href="https://enterprise.github.com/contact" class="py-2 lh-condensed-ultra d-block link-gray no-underline f5" data-ga-click="(Logged out) Header, go to Contact Sales">Contact Sales</a></li>
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242 </ul>
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243
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244 <ul class="list-style-none mb-0 border-lg-top pt-lg-3">
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245 <li class="edge-item-fix"><a href="/nonprofit" class="py-2 lh-condensed-ultra d-block no-underline link-gray-dark no-underline h5 Bump-link--hover" data-ga-click="(Logged out) Header, go to Nonprofits">Nonprofit <span class="Bump-link-symbol float-right text-normal text-gray-light">→</span></a></li>
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246 <li class="edge-item-fix"><a href="https://education.github.com" class="py-2 pb-0 lh-condensed-ultra d-block no-underline link-gray-dark no-underline h5 Bump-link--hover" data-ga-click="(Logged out) Header, go to Education">Education <span class="Bump-link-symbol float-right text-normal text-gray-light">→</span></a></li>
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247 </ul>
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248 </div>
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249 </details>
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250 </li>
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251 </ul>
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252 </nav>
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253
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254 <div class="d-lg-flex flex-items-center px-3 px-lg-0 text-center text-lg-left">
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255 <div class="d-lg-flex mb-3 mb-lg-0">
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256 <div class="header-search flex-self-stretch flex-lg-self-auto mr-0 mr-lg-3 mb-3 mb-lg-0 scoped-search site-scoped-search js-site-search position-relative js-jump-to"
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257 role="combobox"
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258 aria-owns="jump-to-results"
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259 aria-label="Search or jump to"
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260 aria-haspopup="listbox"
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261 aria-expanded="false"
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262 >
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263 <div class="position-relative">
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264 <!-- '"` --><!-- </textarea></xmp> --></option></form><form class="js-site-search-form" role="search" aria-label="Site" data-scope-type="Repository" data-scope-id="139730674" data-scoped-search-url="/johnheap/VAPPER-Galaxy/search" data-unscoped-search-url="/search" action="/johnheap/VAPPER-Galaxy/search" accept-charset="UTF-8" method="get"><input name="utf8" type="hidden" value="✓" />
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265 <label class="form-control input-sm header-search-wrapper p-0 header-search-wrapper-jump-to position-relative d-flex flex-justify-between flex-items-center js-chromeless-input-container">
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266 <input type="text"
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267 class="form-control input-sm header-search-input jump-to-field js-jump-to-field js-site-search-focus js-site-search-field is-clearable"
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268 data-hotkey="s,/"
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269 name="q"
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270 value=""
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271 placeholder="Search"
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272 data-unscoped-placeholder="Search GitHub"
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273 data-scoped-placeholder="Search"
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274 autocapitalize="off"
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275 aria-autocomplete="list"
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276 aria-controls="jump-to-results"
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277 aria-label="Search"
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278 data-jump-to-suggestions-path="/_graphql/GetSuggestedNavigationDestinations#csrf-token=KTCloZOsmcJnQG8+9Rpx1bhv3g0Y6RphAwXNxB0AQyG1y/I19pdeBJolo4nekuHBWhvAt65+3d/8rLCh6xmeUw=="
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279 spellcheck="false"
|
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280 autocomplete="off"
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|
281 >
|
|
|
282 <input type="hidden" class="js-site-search-type-field" name="type" >
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283 <img src="https://github.githubassets.com/images/search-key-slash.svg" alt="" class="mr-2 header-search-key-slash">
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284
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|
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285 <div class="Box position-absolute overflow-hidden d-none jump-to-suggestions js-jump-to-suggestions-container">
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|
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286
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|
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287 <ul class="d-none js-jump-to-suggestions-template-container">
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288
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|
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289
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290 <li class="d-flex flex-justify-start flex-items-center p-0 f5 navigation-item js-navigation-item js-jump-to-suggestion" role="option">
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|
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291 <a tabindex="-1" class="no-underline d-flex flex-auto flex-items-center jump-to-suggestions-path js-jump-to-suggestion-path js-navigation-open p-2" href="">
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|
|
292 <div class="jump-to-octicon js-jump-to-octicon flex-shrink-0 mr-2 text-center d-none">
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293 <svg height="16" width="16" class="octicon octicon-repo flex-shrink-0 js-jump-to-octicon-repo d-none" title="Repository" aria-label="Repository" viewBox="0 0 12 16" version="1.1" role="img"><path fill-rule="evenodd" d="M4 9H3V8h1v1zm0-3H3v1h1V6zm0-2H3v1h1V4zm0-2H3v1h1V2zm8-1v12c0 .55-.45 1-1 1H6v2l-1.5-1.5L3 16v-2H1c-.55 0-1-.45-1-1V1c0-.55.45-1 1-1h10c.55 0 1 .45 1 1zm-1 10H1v2h2v-1h3v1h5v-2zm0-10H2v9h9V1z"/></svg>
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294 <svg height="16" width="16" class="octicon octicon-project flex-shrink-0 js-jump-to-octicon-project d-none" title="Project" aria-label="Project" viewBox="0 0 15 16" version="1.1" role="img"><path fill-rule="evenodd" d="M10 12h3V2h-3v10zm-4-2h3V2H6v8zm-4 4h3V2H2v12zm-1 1h13V1H1v14zM14 0H1a1 1 0 0 0-1 1v14a1 1 0 0 0 1 1h13a1 1 0 0 0 1-1V1a1 1 0 0 0-1-1z"/></svg>
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295 <svg height="16" width="16" class="octicon octicon-search flex-shrink-0 js-jump-to-octicon-search d-none" title="Search" aria-label="Search" viewBox="0 0 16 16" version="1.1" role="img"><path fill-rule="evenodd" d="M15.7 13.3l-3.81-3.83A5.93 5.93 0 0 0 13 6c0-3.31-2.69-6-6-6S1 2.69 1 6s2.69 6 6 6c1.3 0 2.48-.41 3.47-1.11l3.83 3.81c.19.2.45.3.7.3.25 0 .52-.09.7-.3a.996.996 0 0 0 0-1.41v.01zM7 10.7c-2.59 0-4.7-2.11-4.7-4.7 0-2.59 2.11-4.7 4.7-4.7 2.59 0 4.7 2.11 4.7 4.7 0 2.59-2.11 4.7-4.7 4.7z"/></svg>
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296 </div>
|
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297
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|
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298 <img class="avatar mr-2 flex-shrink-0 js-jump-to-suggestion-avatar d-none" alt="" aria-label="Team" src="" width="28" height="28">
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|
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299
|
|
|
300 <div class="jump-to-suggestion-name js-jump-to-suggestion-name flex-auto overflow-hidden text-left no-wrap css-truncate css-truncate-target">
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|
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301 </div>
|
|
|
302
|
|
|
303 <div class="border rounded-1 flex-shrink-0 bg-gray px-1 text-gray-light ml-1 f6 d-none js-jump-to-badge-search">
|
|
|
304 <span class="js-jump-to-badge-search-text-default d-none" aria-label="in this repository">
|
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|
305 In this repository
|
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|
306 </span>
|
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|
307 <span class="js-jump-to-badge-search-text-global d-none" aria-label="in all of GitHub">
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308 All GitHub
|
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309 </span>
|
|
|
310 <span aria-hidden="true" class="d-inline-block ml-1 v-align-middle">↵</span>
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311 </div>
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312
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|
|
313 <div aria-hidden="true" class="border rounded-1 flex-shrink-0 bg-gray px-1 text-gray-light ml-1 f6 d-none d-on-nav-focus js-jump-to-badge-jump">
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314 Jump to
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315 <span class="d-inline-block ml-1 v-align-middle">↵</span>
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316 </div>
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317 </a>
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318 </li>
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319
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320 </ul>
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321
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322 <ul class="d-none js-jump-to-no-results-template-container">
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323 <li class="d-flex flex-justify-center flex-items-center f5 d-none js-jump-to-suggestion p-2">
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|
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324 <span class="text-gray">No suggested jump to results</span>
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325 </li>
|
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326 </ul>
|
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327
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|
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328 <ul id="jump-to-results" role="listbox" class="p-0 m-0 js-navigation-container jump-to-suggestions-results-container js-jump-to-suggestions-results-container">
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|
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329
|
|
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330
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|
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331 <li class="d-flex flex-justify-start flex-items-center p-0 f5 navigation-item js-navigation-item js-jump-to-scoped-search d-none" role="option">
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|
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332 <a tabindex="-1" class="no-underline d-flex flex-auto flex-items-center jump-to-suggestions-path js-jump-to-suggestion-path js-navigation-open p-2" href="">
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333 <div class="jump-to-octicon js-jump-to-octicon flex-shrink-0 mr-2 text-center d-none">
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334 <svg height="16" width="16" class="octicon octicon-repo flex-shrink-0 js-jump-to-octicon-repo d-none" title="Repository" aria-label="Repository" viewBox="0 0 12 16" version="1.1" role="img"><path fill-rule="evenodd" d="M4 9H3V8h1v1zm0-3H3v1h1V6zm0-2H3v1h1V4zm0-2H3v1h1V2zm8-1v12c0 .55-.45 1-1 1H6v2l-1.5-1.5L3 16v-2H1c-.55 0-1-.45-1-1V1c0-.55.45-1 1-1h10c.55 0 1 .45 1 1zm-1 10H1v2h2v-1h3v1h5v-2zm0-10H2v9h9V1z"/></svg>
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335 <svg height="16" width="16" class="octicon octicon-project flex-shrink-0 js-jump-to-octicon-project d-none" title="Project" aria-label="Project" viewBox="0 0 15 16" version="1.1" role="img"><path fill-rule="evenodd" d="M10 12h3V2h-3v10zm-4-2h3V2H6v8zm-4 4h3V2H2v12zm-1 1h13V1H1v14zM14 0H1a1 1 0 0 0-1 1v14a1 1 0 0 0 1 1h13a1 1 0 0 0 1-1V1a1 1 0 0 0-1-1z"/></svg>
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336 <svg height="16" width="16" class="octicon octicon-search flex-shrink-0 js-jump-to-octicon-search d-none" title="Search" aria-label="Search" viewBox="0 0 16 16" version="1.1" role="img"><path fill-rule="evenodd" d="M15.7 13.3l-3.81-3.83A5.93 5.93 0 0 0 13 6c0-3.31-2.69-6-6-6S1 2.69 1 6s2.69 6 6 6c1.3 0 2.48-.41 3.47-1.11l3.83 3.81c.19.2.45.3.7.3.25 0 .52-.09.7-.3a.996.996 0 0 0 0-1.41v.01zM7 10.7c-2.59 0-4.7-2.11-4.7-4.7 0-2.59 2.11-4.7 4.7-4.7 2.59 0 4.7 2.11 4.7 4.7 0 2.59-2.11 4.7-4.7 4.7z"/></svg>
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|
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337 </div>
|
|
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338
|
|
|
339 <img class="avatar mr-2 flex-shrink-0 js-jump-to-suggestion-avatar d-none" alt="" aria-label="Team" src="" width="28" height="28">
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|
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340
|
|
|
341 <div class="jump-to-suggestion-name js-jump-to-suggestion-name flex-auto overflow-hidden text-left no-wrap css-truncate css-truncate-target">
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|
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342 </div>
|
|
|
343
|
|
|
344 <div class="border rounded-1 flex-shrink-0 bg-gray px-1 text-gray-light ml-1 f6 d-none js-jump-to-badge-search">
|
|
|
345 <span class="js-jump-to-badge-search-text-default d-none" aria-label="in this repository">
|
|
|
346 In this repository
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|
347 </span>
|
|
|
348 <span class="js-jump-to-badge-search-text-global d-none" aria-label="in all of GitHub">
|
|
|
349 All GitHub
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350 </span>
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351 <span aria-hidden="true" class="d-inline-block ml-1 v-align-middle">↵</span>
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352 </div>
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353
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|
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354 <div aria-hidden="true" class="border rounded-1 flex-shrink-0 bg-gray px-1 text-gray-light ml-1 f6 d-none d-on-nav-focus js-jump-to-badge-jump">
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355 Jump to
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356 <span class="d-inline-block ml-1 v-align-middle">↵</span>
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357 </div>
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358 </a>
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359 </li>
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360
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361
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362
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363 <li class="d-flex flex-justify-start flex-items-center p-0 f5 navigation-item js-navigation-item js-jump-to-global-search d-none" role="option">
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|
|
364 <a tabindex="-1" class="no-underline d-flex flex-auto flex-items-center jump-to-suggestions-path js-jump-to-suggestion-path js-navigation-open p-2" href="">
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|
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365 <div class="jump-to-octicon js-jump-to-octicon flex-shrink-0 mr-2 text-center d-none">
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366 <svg height="16" width="16" class="octicon octicon-repo flex-shrink-0 js-jump-to-octicon-repo d-none" title="Repository" aria-label="Repository" viewBox="0 0 12 16" version="1.1" role="img"><path fill-rule="evenodd" d="M4 9H3V8h1v1zm0-3H3v1h1V6zm0-2H3v1h1V4zm0-2H3v1h1V2zm8-1v12c0 .55-.45 1-1 1H6v2l-1.5-1.5L3 16v-2H1c-.55 0-1-.45-1-1V1c0-.55.45-1 1-1h10c.55 0 1 .45 1 1zm-1 10H1v2h2v-1h3v1h5v-2zm0-10H2v9h9V1z"/></svg>
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367 <svg height="16" width="16" class="octicon octicon-project flex-shrink-0 js-jump-to-octicon-project d-none" title="Project" aria-label="Project" viewBox="0 0 15 16" version="1.1" role="img"><path fill-rule="evenodd" d="M10 12h3V2h-3v10zm-4-2h3V2H6v8zm-4 4h3V2H2v12zm-1 1h13V1H1v14zM14 0H1a1 1 0 0 0-1 1v14a1 1 0 0 0 1 1h13a1 1 0 0 0 1-1V1a1 1 0 0 0-1-1z"/></svg>
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368 <svg height="16" width="16" class="octicon octicon-search flex-shrink-0 js-jump-to-octicon-search d-none" title="Search" aria-label="Search" viewBox="0 0 16 16" version="1.1" role="img"><path fill-rule="evenodd" d="M15.7 13.3l-3.81-3.83A5.93 5.93 0 0 0 13 6c0-3.31-2.69-6-6-6S1 2.69 1 6s2.69 6 6 6c1.3 0 2.48-.41 3.47-1.11l3.83 3.81c.19.2.45.3.7.3.25 0 .52-.09.7-.3a.996.996 0 0 0 0-1.41v.01zM7 10.7c-2.59 0-4.7-2.11-4.7-4.7 0-2.59 2.11-4.7 4.7-4.7 2.59 0 4.7 2.11 4.7 4.7 0 2.59-2.11 4.7-4.7 4.7z"/></svg>
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369 </div>
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|
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370
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|
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371 <img class="avatar mr-2 flex-shrink-0 js-jump-to-suggestion-avatar d-none" alt="" aria-label="Team" src="" width="28" height="28">
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|
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372
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|
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373 <div class="jump-to-suggestion-name js-jump-to-suggestion-name flex-auto overflow-hidden text-left no-wrap css-truncate css-truncate-target">
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|
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374 </div>
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|
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375
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|
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376 <div class="border rounded-1 flex-shrink-0 bg-gray px-1 text-gray-light ml-1 f6 d-none js-jump-to-badge-search">
|
|
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377 <span class="js-jump-to-badge-search-text-default d-none" aria-label="in this repository">
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|
378 In this repository
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379 </span>
|
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380 <span class="js-jump-to-badge-search-text-global d-none" aria-label="in all of GitHub">
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381 All GitHub
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382 </span>
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383 <span aria-hidden="true" class="d-inline-block ml-1 v-align-middle">↵</span>
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384 </div>
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385
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386 <div aria-hidden="true" class="border rounded-1 flex-shrink-0 bg-gray px-1 text-gray-light ml-1 f6 d-none d-on-nav-focus js-jump-to-badge-jump">
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387 Jump to
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388 <span class="d-inline-block ml-1 v-align-middle">↵</span>
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389 </div>
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390 </a>
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391 </li>
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392
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393
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394 </ul>
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395
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401 </div>
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402
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403 <a class="HeaderMenu-link no-underline mr-3" data-hydro-click="{"event_type":"authentication.click","payload":{"location_in_page":"site header menu","repository_id":null,"auth_type":"LOG_IN","client_id":null,"originating_request_id":"99EF:3DF4:A496E:120BBA:5CF562BE","originating_url":"https://github.com/johnheap/VAPPER-Galaxy/blob/master/VAP.xml","referrer":null,"user_id":null}}" data-hydro-click-hmac="4f690ef143e2ef8459c43b1cbf0fd9a9eec10f2a80477c079b3de11e63ff5f09" data-ga-click="(Logged out) Header, clicked Sign in, text:sign-in" href="/login?return_to=%2Fjohnheap%2FVAPPER-Galaxy%2Fblob%2Fmaster%2FVAP.xml">
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404 Sign in
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405 </a> <a class="HeaderMenu-link d-inline-block no-underline border border-gray-dark rounded-1 px-2 py-1" data-hydro-click="{"event_type":"authentication.click","payload":{"location_in_page":"site header menu","repository_id":null,"auth_type":"SIGN_UP","client_id":null,"originating_request_id":"99EF:3DF4:A496E:120BBA:5CF562BE","originating_url":"https://github.com/johnheap/VAPPER-Galaxy/blob/master/VAP.xml","referrer":null,"user_id":null}}" data-hydro-click-hmac="ec8ff730fd1d25dbc45baf1260ca99d2d34f31dc8b2a02c77ee87f2053979769" data-ga-click="(Logged out) Header, clicked Sign up, text:sign-up" href="/join?source=header-repo">
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406 Sign up
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407 </a> </div>
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408 </div>
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409 </div>
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410 </header>
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411
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412 </div>
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414 <div id="start-of-content" class="show-on-focus"></div>
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415
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434
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435
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444 <li>
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446 <a class="tooltipped tooltipped-s btn btn-sm btn-with-count" aria-label="You must be signed in to watch a repository" rel="nofollow" data-hydro-click="{"event_type":"authentication.click","payload":{"location_in_page":"notification subscription menu watch","repository_id":null,"auth_type":"LOG_IN","client_id":null,"originating_request_id":"99EF:3DF4:A496E:120BBA:5CF562BE","originating_url":"https://github.com/johnheap/VAPPER-Galaxy/blob/master/VAP.xml","referrer":null,"user_id":null}}" data-hydro-click-hmac="8dddd512b2dc49dab945983d685c6b3a9c0a11f068b428bdc1c04fe9e2a97c91" href="/login?return_to=%2Fjohnheap%2FVAPPER-Galaxy">
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448 Watch
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449 </a> <a class="social-count" href="/johnheap/VAPPER-Galaxy/watchers"
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457 <a class="btn btn-sm btn-with-count tooltipped tooltipped-s" aria-label="You must be signed in to star a repository" rel="nofollow" data-hydro-click="{"event_type":"authentication.click","payload":{"location_in_page":"star button","repository_id":139730674,"auth_type":"LOG_IN","client_id":null,"originating_request_id":"99EF:3DF4:A496E:120BBA:5CF562BE","originating_url":"https://github.com/johnheap/VAPPER-Galaxy/blob/master/VAP.xml","referrer":null,"user_id":null}}" data-hydro-click-hmac="72a01d4806b6274320d1e9ce8da13a74340551facd3b8a85a0f7605defdae929" href="/login?return_to=%2Fjohnheap%2FVAPPER-Galaxy">
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459 Star
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471 Fork
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608 </form> <h3 class="pt-2">Join GitHub today</h3>
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609 <p class="col-6 mx-auto">GitHub is home to over 36 million developers working together to host and review code, manage projects, and build software together.</p>
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610 <a class="btn btn-primary" data-hydro-click="{"event_type":"authentication.click","payload":{"location_in_page":"files signup prompt","repository_id":null,"auth_type":"SIGN_UP","client_id":null,"originating_request_id":"99EF:3DF4:A496E:120BBA:5CF562BE","originating_url":"https://github.com/johnheap/VAPPER-Galaxy/blob/master/VAP.xml","referrer":null,"user_id":null}}" data-hydro-click-hmac="537bdf6bf43c4dc3bd254337f308e0d44d1960ce89fdb7d9e41832f46310cfd9" data-ga-click="(Logged out) Sign up prompt, clicked Sign up, text:sign-up" href="/join?source=prompt-blob-show">Sign up</a>
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611 </div>
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612 </div>
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613 </div>
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614
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616 <div class="d-flex flex-items-start flex-shrink-0 mb-2 flex-column flex-md-row">
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617 <span class="d-flex flex-justify-between width-full width-md-auto">
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618
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619 <details class="details-reset details-overlay select-menu branch-select-menu hx_rsm" id="branch-select-menu">
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620 <summary class="btn btn-sm select-menu-button css-truncate"
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621 data-hotkey="w"
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622
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623 title="Switch branches or tags">
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624 <i>Branch:</i>
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625 <span class="css-truncate-target">master</span>
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626 </summary>
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627
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628 <details-menu class="select-menu-modal hx_rsm-modal position-absolute" style="z-index: 99;" src="/johnheap/VAPPER-Galaxy/ref-list/master/VAP.xml?source_action=show&source_controller=blob" preload>
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629 <include-fragment class="select-menu-loading-overlay anim-pulse">
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630 <svg height="32" class="octicon octicon-octoface" viewBox="0 0 16 16" version="1.1" width="32" aria-hidden="true"><path fill-rule="evenodd" d="M14.7 5.34c.13-.32.55-1.59-.13-3.31 0 0-1.05-.33-3.44 1.3-1-.28-2.07-.32-3.13-.32s-2.13.04-3.13.32c-2.39-1.64-3.44-1.3-3.44-1.3-.68 1.72-.26 2.99-.13 3.31C.49 6.21 0 7.33 0 8.69 0 13.84 3.33 15 7.98 15S16 13.84 16 8.69c0-1.36-.49-2.48-1.3-3.35zM8 14.02c-3.3 0-5.98-.15-5.98-3.35 0-.76.38-1.48 1.02-2.07 1.07-.98 2.9-.46 4.96-.46 2.07 0 3.88-.52 4.96.46.65.59 1.02 1.3 1.02 2.07 0 3.19-2.68 3.35-5.98 3.35zM5.49 9.01c-.66 0-1.2.8-1.2 1.78s.54 1.79 1.2 1.79c.66 0 1.2-.8 1.2-1.79s-.54-1.78-1.2-1.78zm5.02 0c-.66 0-1.2.79-1.2 1.78s.54 1.79 1.2 1.79c.66 0 1.2-.8 1.2-1.79s-.53-1.78-1.2-1.78z"/></svg>
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631 </include-fragment>
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632 </details-menu>
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633 </details>
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634
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635 <div class="BtnGroup flex-shrink-0 d-md-none">
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636 <a href="/johnheap/VAPPER-Galaxy/find/master"
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637 class="js-pjax-capture-input btn btn-sm BtnGroup-item"
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638 data-pjax
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639 data-hotkey="t">
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640 Find file
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641 </a>
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642 <clipboard-copy value="VAP.xml" class="btn btn-sm BtnGroup-item">
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643 Copy path
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644 </clipboard-copy>
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645 </div>
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646 </span>
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647 <h2 id="blob-path" class="breadcrumb flex-auto min-width-0 text-normal flex-md-self-center ml-md-2 mr-md-3 my-2 my-md-0">
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648 <span class="js-repo-root text-bold"><span class="js-path-segment"><a data-pjax="true" href="/johnheap/VAPPER-Galaxy"><span>VAPPER-Galaxy</span></a></span></span><span class="separator">/</span><strong class="final-path">VAP.xml</strong>
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649 </h2>
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650
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651 <div class="BtnGroup flex-shrink-0 d-none d-md-inline-block">
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652 <a href="/johnheap/VAPPER-Galaxy/find/master"
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653 class="js-pjax-capture-input btn btn-sm BtnGroup-item"
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654 data-pjax
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655 data-hotkey="t">
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656 Find file
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657 </a>
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658 <clipboard-copy value="VAP.xml" class="btn btn-sm BtnGroup-item">
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659 Copy path
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660 </clipboard-copy>
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661 </div>
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662 </div>
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663
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664
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665
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666 <include-fragment src="/johnheap/VAPPER-Galaxy/contributors/master/VAP.xml" class="Box Box--condensed commit-loader">
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667 <div class="Box-body bg-blue-light f6">
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668 Fetching contributors…
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669 </div>
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670
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671 <div class="Box-body d-flex flex-items-center" >
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672 <img alt="" class="loader-loading mr-2" src="https://github.githubassets.com/images/spinners/octocat-spinner-32-EAF2F5.gif" width="16" height="16" />
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673 <span class="text-red h6 loader-error">Cannot retrieve contributors at this time</span>
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674 </div>
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675 </include-fragment>
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676
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677
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678
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679
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680
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681 <div class="Box mt-3 position-relative">
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682
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683 <div class="Box-header py-2 d-flex flex-column flex-shrink-0 flex-md-row flex-md-items-center">
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684
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685 <div class="text-mono f6 flex-auto pr-3 flex-order-2 flex-md-order-1 mt-2 mt-md-0">
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686 143 lines (135 sloc)
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687 <span class="file-info-divider"></span>
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688 7.93 KB
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689 </div>
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690
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691 <div class="d-flex py-1 py-md-0 flex-auto flex-order-1 flex-md-order-2 flex-sm-grow-0 flex-justify-between">
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692
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693 <div class="BtnGroup">
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694 <a id="raw-url" class="btn btn-sm BtnGroup-item" href="/johnheap/VAPPER-Galaxy/raw/master/VAP.xml">Raw</a>
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695 <a class="btn btn-sm js-update-url-with-hash BtnGroup-item" data-hotkey="b" href="/johnheap/VAPPER-Galaxy/blame/master/VAP.xml">Blame</a>
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696 <a rel="nofollow" class="btn btn-sm BtnGroup-item" href="/johnheap/VAPPER-Galaxy/commits/master/VAP.xml">History</a>
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697 </div>
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698
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699
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700 <div>
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701
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702 <button type="button" class="btn-octicon disabled tooltipped tooltipped-nw"
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703 aria-label="You must be signed in to make or propose changes">
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704 <svg class="octicon octicon-pencil" viewBox="0 0 14 16" version="1.1" width="14" height="16" aria-hidden="true"><path fill-rule="evenodd" d="M0 12v3h3l8-8-3-3-8 8zm3 2H1v-2h1v1h1v1zm10.3-9.3L12 6 9 3l1.3-1.3a.996.996 0 0 1 1.41 0l1.59 1.59c.39.39.39 1.02 0 1.41z"/></svg>
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705 </button>
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706 <button type="button" class="btn-octicon btn-octicon-danger disabled tooltipped tooltipped-nw"
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707 aria-label="You must be signed in to make or propose changes">
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708 <svg class="octicon octicon-trashcan" viewBox="0 0 12 16" version="1.1" width="12" height="16" aria-hidden="true"><path fill-rule="evenodd" d="M11 2H9c0-.55-.45-1-1-1H5c-.55 0-1 .45-1 1H2c-.55 0-1 .45-1 1v1c0 .55.45 1 1 1v9c0 .55.45 1 1 1h7c.55 0 1-.45 1-1V5c.55 0 1-.45 1-1V3c0-.55-.45-1-1-1zm-1 12H3V5h1v8h1V5h1v8h1V5h1v8h1V5h1v9zm1-10H2V3h9v1z"/></svg>
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709 </button>
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710 </div>
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711 </div>
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712 </div>
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713
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714
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715
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716 <div itemprop="text" class="Box-body p-0 blob-wrapper data type-xml ">
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717
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718 <table class="highlight tab-size js-file-line-container" data-tab-size="8">
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719 <tr>
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720 <td id="L1" class="blob-num js-line-number" data-line-number="1"></td>
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721 <td id="LC1" class="blob-code blob-code-inner js-file-line"><<span class="pl-ent">tool</span> <span class="pl-e">id</span>=<span class="pl-s"><span class="pl-pds">"</span>VAP<span class="pl-pds">"</span></span> <span class="pl-e">name</span>=<span class="pl-s"><span class="pl-pds">"</span>VAPPER<span class="pl-pds">"</span></span> <span class="pl-e">version</span>=<span class="pl-s"><span class="pl-pds">"</span>1.1.0<span class="pl-pds">"</span></span>></td>
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722 </tr>
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723 <tr>
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724 <td id="L2" class="blob-num js-line-number" data-line-number="2"></td>
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725 <td id="LC2" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">description</span>>is a Variant Antigen Profiler that accurately quantifies the variant antigen diversity or presence in a Trypanosoma congolense or T.vivax isolate</<span class="pl-ent">description</span>></td>
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726 </tr>
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727 <tr>
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728 <td id="L3" class="blob-num js-line-number" data-line-number="3"></td>
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729 <td id="LC3" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">requirements</span>></td>
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730 </tr>
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731 <tr>
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732 <td id="L4" class="blob-num js-line-number" data-line-number="4"></td>
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733 <td id="LC4" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">requirement</span> <span class="pl-e">type</span>=<span class="pl-s"><span class="pl-pds">"</span>package<span class="pl-pds">"</span></span> <span class="pl-e">version</span>=<span class="pl-s"><span class="pl-pds">"</span>1.2.10<span class="pl-pds">"</span></span>>velvet</<span class="pl-ent">requirement</span>></td>
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734 </tr>
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735 <tr>
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736 <td id="L5" class="blob-num js-line-number" data-line-number="5"></td>
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737 <td id="LC5" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">requirement</span> <span class="pl-e">type</span>=<span class="pl-s"><span class="pl-pds">"</span>package<span class="pl-pds">"</span></span> <span class="pl-e">version</span>=<span class="pl-s"><span class="pl-pds">"</span>3.1b2<span class="pl-pds">"</span></span>>HMMER</<span class="pl-ent">requirement</span>></td>
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738 </tr>
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739 <tr>
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740 <td id="L6" class="blob-num js-line-number" data-line-number="6"></td>
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741 <td id="LC6" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">requirement</span> <span class="pl-e">type</span>=<span class="pl-s"><span class="pl-pds">"</span>package<span class="pl-pds">"</span></span> <span class="pl-e">version</span>=<span class="pl-s"><span class="pl-pds">"</span>2.2.6<span class="pl-pds">"</span></span>>bowtie2</<span class="pl-ent">requirement</span>></td>
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742 </tr>
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743 <tr>
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744 <td id="L7" class="blob-num js-line-number" data-line-number="7"></td>
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745 <td id="LC7" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">requirement</span> <span class="pl-e">type</span>=<span class="pl-s"><span class="pl-pds">"</span>package<span class="pl-pds">"</span></span> <span class="pl-e">version</span>=<span class="pl-s"><span class="pl-pds">"</span>1.6<span class="pl-pds">"</span></span>>samtools</<span class="pl-ent">requirement</span>></td>
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746 </tr>
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747 <tr>
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748 <td id="L8" class="blob-num js-line-number" data-line-number="8"></td>
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749 <td id="LC8" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">requirement</span> <span class="pl-e">type</span>=<span class="pl-s"><span class="pl-pds">"</span>package<span class="pl-pds">"</span></span> <span class="pl-e">version</span>=<span class="pl-s"><span class="pl-pds">"</span>2.2.1<span class="pl-pds">"</span></span>>cufflinks</<span class="pl-ent">requirement</span>></td>
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750 </tr>
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751 <tr>
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752 <td id="L9" class="blob-num js-line-number" data-line-number="9"></td>
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753 <td id="LC9" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">requirement</span> <span class="pl-e">type</span>=<span class="pl-s"><span class="pl-pds">"</span>package<span class="pl-pds">"</span></span> <span class="pl-e">version</span>=<span class="pl-s"><span class="pl-pds">"</span>2.7.1<span class="pl-pds">"</span></span>>blast</<span class="pl-ent">requirement</span>></td>
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754 </tr>
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755 <tr>
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756 <td id="L10" class="blob-num js-line-number" data-line-number="10"></td>
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757 <td id="LC10" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">requirement</span> <span class="pl-e">type</span>=<span class="pl-s"><span class="pl-pds">"</span>package<span class="pl-pds">"</span></span> <span class="pl-e">version</span>=<span class="pl-s"><span class="pl-pds">"</span>6.6.0.0<span class="pl-pds">"</span></span>>EMBOSS</<span class="pl-ent">requirement</span>></td>
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758 </tr>
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759 <tr>
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760 <td id="L11" class="blob-num js-line-number" data-line-number="11"></td>
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761 <td id="LC11" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">requirement</span> <span class="pl-e">type</span>=<span class="pl-s"><span class="pl-pds">"</span>package<span class="pl-pds">"</span></span> <span class="pl-e">version</span>=<span class="pl-s"><span class="pl-pds">"</span>0.8.0<span class="pl-pds">"</span></span>>seaborn</<span class="pl-ent">requirement</span>></td>
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762 </tr>
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763 <tr>
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764 <td id="L12" class="blob-num js-line-number" data-line-number="12"></td>
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765 <td id="LC12" class="blob-code blob-code-inner js-file-line"> </<span class="pl-ent">requirements</span>></td>
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766 </tr>
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767 <tr>
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768 <td id="L13" class="blob-num js-line-number" data-line-number="13"></td>
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769 <td id="LC13" class="blob-code blob-code-inner js-file-line">
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770 </td>
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771 </tr>
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772 <tr>
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773 <td id="L14" class="blob-num js-line-number" data-line-number="14"></td>
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774 <td id="LC14" class="blob-code blob-code-inner js-file-line">
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775 </td>
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776 </tr>
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777 <tr>
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778 <td id="L15" class="blob-num js-line-number" data-line-number="15"></td>
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779 <td id="LC15" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">command</span> <span class="pl-e">interpreter</span>=<span class="pl-s"><span class="pl-pds">"</span>python<span class="pl-pds">"</span></span> <span class="pl-e">detect_errors</span>=<span class="pl-s"><span class="pl-pds">"</span>exit_code<span class="pl-pds">"</span></span>></td>
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780 </tr>
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781 <tr>
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782 <td id="L16" class="blob-num js-line-number" data-line-number="16"></td>
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783 <td id="LC16" class="blob-code blob-code-inner js-file-line"> #if $TrypType.species == "Trypanosoma congolense":</td>
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784 </tr>
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785 <tr>
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786 <td id="L17" class="blob-num js-line-number" data-line-number="17"></td>
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787 <td id="LC17" class="blob-code blob-code-inner js-file-line"> #if $TrypType.GT.analysis == "Genomic":</td>
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788 </tr>
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789 <tr>
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790 <td id="L18" class="blob-num js-line-number" data-line-number="18"></td>
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791 <td id="LC18" class="blob-code blob-code-inner js-file-line"> #if $TrypType.GT.contigs.preassem == "Contig available":</td>
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792 </tr>
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793 <tr>
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794 <td id="L19" class="blob-num js-line-number" data-line-number="19"></td>
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795 <td id="LC19" class="blob-code blob-code-inner js-file-line"> <span class="pl-c"><span class="pl-c"><!--</span> name:2, pdfexport:3, contigs:4, html_file:5, html_resource:6 <span class="pl-c">--></span></span></td>
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796 </tr>
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797 <tr>
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798 <td id="L20" class="blob-num js-line-number" data-line-number="20"></td>
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799 <td id="LC20" class="blob-code blob-code-inner js-file-line"> Vap.py g_contigs $xname $P $TrypType.GT.contigs.contig $html_file $html_file.extra_files_path</td>
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800 </tr>
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801 <tr>
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802 <td id="L21" class="blob-num js-line-number" data-line-number="21"></td>
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803 <td id="LC21" class="blob-code blob-code-inner js-file-line"> #else</td>
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804 </tr>
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805 <tr>
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806 <td id="L22" class="blob-num js-line-number" data-line-number="22"></td>
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807 <td id="LC22" class="blob-code blob-code-inner js-file-line"> <span class="pl-c"><span class="pl-c"><!--</span> name = 2, pdfexport = 3, kmers = 4, inslen = 5, covcut = 6, forward = 7, reverse = 8, html_file = 9, html_resource = 10 <span class="pl-c">--></span></span></td>
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808 </tr>
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809 <tr>
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810 <td id="L23" class="blob-num js-line-number" data-line-number="23"></td>
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811 <td id="LC23" class="blob-code blob-code-inner js-file-line"> Vap.py g_assemble $xname $P $TrypType.GT.contigs.kmers $TrypType.GT.contigs.inslen $TrypType.GT.contigs.covcut $TrypType.GT.contigs.forward $TrypType.GT.contigs.reverse $html_file $html_file.extra_files_path</td>
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812 </tr>
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813 <tr>
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814 <td id="L24" class="blob-num js-line-number" data-line-number="24"></td>
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815 <td id="LC24" class="blob-code blob-code-inner js-file-line"> #end if</td>
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816 </tr>
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817 <tr>
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818 <td id="L25" class="blob-num js-line-number" data-line-number="25"></td>
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819 <td id="LC25" class="blob-code blob-code-inner js-file-line"> #else</td>
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820 </tr>
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821 <tr>
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822 <td id="L26" class="blob-num js-line-number" data-line-number="26"></td>
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|
|
823 <td id="LC26" class="blob-code blob-code-inner js-file-line"> <span class="pl-c"><span class="pl-c"><!--</span> name:2, pdfexport:3, strain:4, forward:5, reverse:6, html_file:7, html_resource:8 <span class="pl-c">--></span></span></td>
|
|
|
824 </tr>
|
|
|
825 <tr>
|
|
|
826 <td id="L27" class="blob-num js-line-number" data-line-number="27"></td>
|
|
|
827 <td id="LC27" class="blob-code blob-code-inner js-file-line"> Vap.py transcipt $xname $P $TrypType.GT.strain $TrypType.GT.forward $TrypType.GT.reverse $html_file $html_file.extra_files_path</td>
|
|
|
828 </tr>
|
|
|
829 <tr>
|
|
|
830 <td id="L28" class="blob-num js-line-number" data-line-number="28"></td>
|
|
|
831 <td id="LC28" class="blob-code blob-code-inner js-file-line"> #end if</td>
|
|
|
832 </tr>
|
|
|
833 <tr>
|
|
|
834 <td id="L29" class="blob-num js-line-number" data-line-number="29"></td>
|
|
|
835 <td id="LC29" class="blob-code blob-code-inner js-file-line"> #else</td>
|
|
|
836 </tr>
|
|
|
837 <tr>
|
|
|
838 <td id="L30" class="blob-num js-line-number" data-line-number="30"></td>
|
|
|
839 <td id="LC30" class="blob-code blob-code-inner js-file-line"> #if $TrypType.GT.analysis == "Transcriptomic":</td>
|
|
|
840 </tr>
|
|
|
841 <tr>
|
|
|
842 <td id="L31" class="blob-num js-line-number" data-line-number="31"></td>
|
|
|
843 <td id="LC31" class="blob-code blob-code-inner js-file-line"> Vap.py v_transcript $xname $P $TrypType.GT.vtreference $TrypType.GT.forward $TrypType.GT.reverse $html_file $html_file.extra_files_path</td>
|
|
|
844 </tr>
|
|
|
845 <tr>
|
|
|
846 <td id="L32" class="blob-num js-line-number" data-line-number="32"></td>
|
|
|
847 <td id="LC32" class="blob-code blob-code-inner js-file-line"> #else</td>
|
|
|
848 </tr>
|
|
|
849 <tr>
|
|
|
850 <td id="L33" class="blob-num js-line-number" data-line-number="33"></td>
|
|
|
851 <td id="LC33" class="blob-code blob-code-inner js-file-line"> #if $TrypType.contigs.preassem == "Contig available":</td>
|
|
|
852 </tr>
|
|
|
853 <tr>
|
|
|
854 <td id="L34" class="blob-num js-line-number" data-line-number="34"></td>
|
|
|
855 <td id="LC34" class="blob-code blob-code-inner js-file-line"> <span class="pl-c"><span class="pl-c"><!--</span> name:2, pdfexport:3, contigs:4, html_file:5, html_resource:6 <span class="pl-c">--></span></span></td>
|
|
|
856 </tr>
|
|
|
857 <tr>
|
|
|
858 <td id="L35" class="blob-num js-line-number" data-line-number="35"></td>
|
|
|
859 <td id="LC35" class="blob-code blob-code-inner js-file-line"> Vap.py v_contigs $xname $P $TrypType.contigs.contig $html_file $html_file.extra_files_path</td>
|
|
|
860 </tr>
|
|
|
861 <tr>
|
|
|
862 <td id="L36" class="blob-num js-line-number" data-line-number="36"></td>
|
|
|
863 <td id="LC36" class="blob-code blob-code-inner js-file-line"> #else</td>
|
|
|
864 </tr>
|
|
|
865 <tr>
|
|
|
866 <td id="L37" class="blob-num js-line-number" data-line-number="37"></td>
|
|
|
867 <td id="LC37" class="blob-code blob-code-inner js-file-line"> <span class="pl-c"><span class="pl-c"><!--</span> name = 2, pdfexport = 3, kmers = 4, inslen = 5, covcut = 6, forward = 7, reverse = 8, html_file = 9, html_resource = 10 <span class="pl-c">--></span></span></td>
|
|
|
868 </tr>
|
|
|
869 <tr>
|
|
|
870 <td id="L38" class="blob-num js-line-number" data-line-number="38"></td>
|
|
|
871 <td id="LC38" class="blob-code blob-code-inner js-file-line"> Vap.py v_assemble $xname $P $TrypType.contigs.kmers $TrypType.contigs.inslen 0 $TrypType.contigs.forward $TrypType.contigs.reverse $html_file $html_file.extra_files_path</td>
|
|
|
872 </tr>
|
|
|
873 <tr>
|
|
|
874 <td id="L39" class="blob-num js-line-number" data-line-number="39"></td>
|
|
|
875 <td id="LC39" class="blob-code blob-code-inner js-file-line"> #end if</td>
|
|
|
876 </tr>
|
|
|
877 <tr>
|
|
|
878 <td id="L40" class="blob-num js-line-number" data-line-number="40"></td>
|
|
|
879 <td id="LC40" class="blob-code blob-code-inner js-file-line"> #end if </td>
|
|
|
880 </tr>
|
|
|
881 <tr>
|
|
|
882 <td id="L41" class="blob-num js-line-number" data-line-number="41"></td>
|
|
|
883 <td id="LC41" class="blob-code blob-code-inner js-file-line"> #end if</td>
|
|
|
884 </tr>
|
|
|
885 <tr>
|
|
|
886 <td id="L42" class="blob-num js-line-number" data-line-number="42"></td>
|
|
|
887 <td id="LC42" class="blob-code blob-code-inner js-file-line">
|
|
|
888 </td>
|
|
|
889 </tr>
|
|
|
890 <tr>
|
|
|
891 <td id="L43" class="blob-num js-line-number" data-line-number="43"></td>
|
|
|
892 <td id="LC43" class="blob-code blob-code-inner js-file-line"> </<span class="pl-ent">command</span>></td>
|
|
|
893 </tr>
|
|
|
894 <tr>
|
|
|
895 <td id="L44" class="blob-num js-line-number" data-line-number="44"></td>
|
|
|
896 <td id="LC44" class="blob-code blob-code-inner js-file-line">
|
|
|
897 </td>
|
|
|
898 </tr>
|
|
|
899 <tr>
|
|
|
900 <td id="L45" class="blob-num js-line-number" data-line-number="45"></td>
|
|
|
901 <td id="LC45" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">inputs</span>></td>
|
|
|
902 </tr>
|
|
|
903 <tr>
|
|
|
904 <td id="L46" class="blob-num js-line-number" data-line-number="46"></td>
|
|
|
905 <td id="LC46" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">param</span> <span class="pl-e">name</span>=<span class="pl-s"><span class="pl-pds">"</span>xname<span class="pl-pds">"</span></span> size = <span class="pl-s"><span class="pl-pds">"</span>30<span class="pl-pds">"</span></span> <span class="pl-e">type</span>=<span class="pl-s"><span class="pl-pds">"</span>text<span class="pl-pds">"</span></span> value = <span class="pl-s"><span class="pl-pds">"</span>Test<span class="pl-pds">"</span></span> <span class="pl-e">label</span>=<span class="pl-s"><span class="pl-pds">"</span>Prefix Name<span class="pl-pds">"</span></span> /></td>
|
|
|
906 </tr>
|
|
|
907 <tr>
|
|
|
908 <td id="L47" class="blob-num js-line-number" data-line-number="47"></td>
|
|
|
909 <td id="LC47" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">conditional</span> name = <span class="pl-s"><span class="pl-pds">"</span>TrypType<span class="pl-pds">"</span></span>></td>
|
|
|
910 </tr>
|
|
|
911 <tr>
|
|
|
912 <td id="L48" class="blob-num js-line-number" data-line-number="48"></td>
|
|
|
913 <td id="LC48" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">param</span> name = <span class="pl-s"><span class="pl-pds">"</span>species<span class="pl-pds">"</span></span> type = <span class="pl-s"><span class="pl-pds">'</span>select<span class="pl-pds">'</span></span> <span class="pl-e">label</span>=<span class="pl-s"><span class="pl-pds">"</span>Select Species<span class="pl-pds">"</span></span>></td>
|
|
|
914 </tr>
|
|
|
915 <tr>
|
|
|
916 <td id="L49" class="blob-num js-line-number" data-line-number="49"></td>
|
|
|
917 <td id="LC49" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">option</span> value = <span class="pl-s"><span class="pl-pds">"</span>Trypanosoma congolense<span class="pl-pds">"</span></span> <span class="pl-e">selected</span>=<span class="pl-s"><span class="pl-pds">"</span>true<span class="pl-pds">"</span></span>></<span class="pl-ent">option</span>></td>
|
|
|
918 </tr>
|
|
|
919 <tr>
|
|
|
920 <td id="L50" class="blob-num js-line-number" data-line-number="50"></td>
|
|
|
921 <td id="LC50" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">option</span> value = <span class="pl-s"><span class="pl-pds">"</span>Trypanosoma vivax<span class="pl-pds">"</span></span>></<span class="pl-ent">option</span>></td>
|
|
|
922 </tr>
|
|
|
923 <tr>
|
|
|
924 <td id="L51" class="blob-num js-line-number" data-line-number="51"></td>
|
|
|
925 <td id="LC51" class="blob-code blob-code-inner js-file-line"> </<span class="pl-ent">param</span>></td>
|
|
|
926 </tr>
|
|
|
927 <tr>
|
|
|
928 <td id="L52" class="blob-num js-line-number" data-line-number="52"></td>
|
|
|
929 <td id="LC52" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">when</span> value = <span class="pl-s"><span class="pl-pds">"</span>Trypanosoma congolense<span class="pl-pds">"</span></span>></td>
|
|
|
930 </tr>
|
|
|
931 <tr>
|
|
|
932 <td id="L53" class="blob-num js-line-number" data-line-number="53"></td>
|
|
|
933 <td id="LC53" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">conditional</span> name = <span class="pl-s"><span class="pl-pds">"</span>GT<span class="pl-pds">"</span></span>></td>
|
|
|
934 </tr>
|
|
|
935 <tr>
|
|
|
936 <td id="L54" class="blob-num js-line-number" data-line-number="54"></td>
|
|
|
937 <td id="LC54" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">param</span> <span class="pl-e">name</span>=<span class="pl-s"><span class="pl-pds">"</span>analysis<span class="pl-pds">"</span></span> type = <span class="pl-s"><span class="pl-pds">"</span>select<span class="pl-pds">"</span></span> label = <span class="pl-s"><span class="pl-pds">"</span>Genomic or Transcriptomic Analysis?<span class="pl-pds">"</span></span>></td>
|
|
|
938 </tr>
|
|
|
939 <tr>
|
|
|
940 <td id="L55" class="blob-num js-line-number" data-line-number="55"></td>
|
|
|
941 <td id="LC55" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">option</span> value = <span class="pl-s"><span class="pl-pds">"</span>Genomic<span class="pl-pds">"</span></span> selected = <span class="pl-s"><span class="pl-pds">"</span>true<span class="pl-pds">"</span></span>></<span class="pl-ent">option</span>></td>
|
|
|
942 </tr>
|
|
|
943 <tr>
|
|
|
944 <td id="L56" class="blob-num js-line-number" data-line-number="56"></td>
|
|
|
945 <td id="LC56" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">option</span> value = <span class="pl-s"><span class="pl-pds">"</span>Transcriptomic<span class="pl-pds">"</span></span>></<span class="pl-ent">option</span>></td>
|
|
|
946 </tr>
|
|
|
947 <tr>
|
|
|
948 <td id="L57" class="blob-num js-line-number" data-line-number="57"></td>
|
|
|
949 <td id="LC57" class="blob-code blob-code-inner js-file-line"> </<span class="pl-ent">param</span>></td>
|
|
|
950 </tr>
|
|
|
951 <tr>
|
|
|
952 <td id="L58" class="blob-num js-line-number" data-line-number="58"></td>
|
|
|
953 <td id="LC58" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">when</span> value = <span class="pl-s"><span class="pl-pds">"</span>Genomic<span class="pl-pds">"</span></span>></td>
|
|
|
954 </tr>
|
|
|
955 <tr>
|
|
|
956 <td id="L59" class="blob-num js-line-number" data-line-number="59"></td>
|
|
|
957 <td id="LC59" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">conditional</span> name = <span class="pl-s"><span class="pl-pds">"</span>contigs<span class="pl-pds">"</span></span>></td>
|
|
|
958 </tr>
|
|
|
959 <tr>
|
|
|
960 <td id="L60" class="blob-num js-line-number" data-line-number="60"></td>
|
|
|
961 <td id="LC60" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">param</span> name = <span class="pl-s"><span class="pl-pds">"</span>preassem<span class="pl-pds">"</span></span> type = <span class="pl-s"><span class="pl-pds">"</span>select<span class="pl-pds">"</span></span> label = <span class="pl-s"><span class="pl-pds">"</span>Contig file available?<span class="pl-pds">"</span></span>></td>
|
|
|
962 </tr>
|
|
|
963 <tr>
|
|
|
964 <td id="L61" class="blob-num js-line-number" data-line-number="61"></td>
|
|
|
965 <td id="LC61" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">option</span> value = <span class="pl-s"><span class="pl-pds">"</span>Full assembly<span class="pl-pds">"</span></span> selected = <span class="pl-s"><span class="pl-pds">"</span>true<span class="pl-pds">"</span></span>></<span class="pl-ent">option</span>></td>
|
|
|
966 </tr>
|
|
|
967 <tr>
|
|
|
968 <td id="L62" class="blob-num js-line-number" data-line-number="62"></td>
|
|
|
969 <td id="LC62" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">option</span> value = <span class="pl-s"><span class="pl-pds">"</span>Contig available<span class="pl-pds">"</span></span>></<span class="pl-ent">option</span>></td>
|
|
|
970 </tr>
|
|
|
971 <tr>
|
|
|
972 <td id="L63" class="blob-num js-line-number" data-line-number="63"></td>
|
|
|
973 <td id="LC63" class="blob-code blob-code-inner js-file-line"> </<span class="pl-ent">param</span>></td>
|
|
|
974 </tr>
|
|
|
975 <tr>
|
|
|
976 <td id="L64" class="blob-num js-line-number" data-line-number="64"></td>
|
|
|
977 <td id="LC64" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">when</span> value = <span class="pl-s"><span class="pl-pds">"</span>Full assembly<span class="pl-pds">"</span></span>></td>
|
|
|
978 </tr>
|
|
|
979 <tr>
|
|
|
980 <td id="L65" class="blob-num js-line-number" data-line-number="65"></td>
|
|
|
981 <td id="LC65" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">param</span> name = <span class="pl-s"><span class="pl-pds">"</span>kmers<span class="pl-pds">"</span></span> <span class="pl-e">type</span>=<span class="pl-s"><span class="pl-pds">"</span>integer<span class="pl-pds">"</span></span> <span class="pl-e">value</span>=<span class="pl-s"><span class="pl-pds">"</span>65<span class="pl-pds">"</span></span> <span class="pl-e">min</span>=<span class="pl-s"><span class="pl-pds">"</span>31<span class="pl-pds">"</span></span> <span class="pl-e">max</span>=<span class="pl-s"><span class="pl-pds">"</span>99<span class="pl-pds">"</span></span> label = <span class="pl-s"><span class="pl-pds">"</span>Specify kmers<span class="pl-pds">"</span></span>></<span class="pl-ent">param</span>></td>
|
|
|
982 </tr>
|
|
|
983 <tr>
|
|
|
984 <td id="L66" class="blob-num js-line-number" data-line-number="66"></td>
|
|
|
985 <td id="LC66" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">param</span> name = <span class="pl-s"><span class="pl-pds">"</span>inslen<span class="pl-pds">"</span></span> <span class="pl-e">type</span>=<span class="pl-s"><span class="pl-pds">"</span>integer<span class="pl-pds">"</span></span> <span class="pl-e">value</span>=<span class="pl-s"><span class="pl-pds">"</span>400<span class="pl-pds">"</span></span> <span class="pl-e">min</span>=<span class="pl-s"><span class="pl-pds">"</span>1<span class="pl-pds">"</span></span> <span class="pl-e">max</span>=<span class="pl-s"><span class="pl-pds">"</span>999<span class="pl-pds">"</span></span> label = <span class="pl-s"><span class="pl-pds">"</span>Insert length<span class="pl-pds">"</span></span>></<span class="pl-ent">param</span>></td>
|
|
|
986 </tr>
|
|
|
987 <tr>
|
|
|
988 <td id="L67" class="blob-num js-line-number" data-line-number="67"></td>
|
|
|
989 <td id="LC67" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">param</span> name = <span class="pl-s"><span class="pl-pds">"</span>covcut<span class="pl-pds">"</span></span> <span class="pl-e">type</span>=<span class="pl-s"><span class="pl-pds">"</span>integer<span class="pl-pds">"</span></span> <span class="pl-e">value</span>=<span class="pl-s"><span class="pl-pds">"</span>5<span class="pl-pds">"</span></span> <span class="pl-e">min</span>=<span class="pl-s"><span class="pl-pds">"</span>1<span class="pl-pds">"</span></span> <span class="pl-e">max</span>=<span class="pl-s"><span class="pl-pds">"</span>999<span class="pl-pds">"</span></span> label = <span class="pl-s"><span class="pl-pds">"</span>Coverage cut off<span class="pl-pds">"</span></span>></<span class="pl-ent">param</span>></td>
|
|
|
990 </tr>
|
|
|
991 <tr>
|
|
|
992 <td id="L68" class="blob-num js-line-number" data-line-number="68"></td>
|
|
|
993 <td id="LC68" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">param</span> <span class="pl-e">name</span>=<span class="pl-s"><span class="pl-pds">"</span>forward<span class="pl-pds">"</span></span> <span class="pl-e">type</span>=<span class="pl-s"><span class="pl-pds">"</span>data<span class="pl-pds">"</span></span> <span class="pl-e">format</span>=<span class="pl-s"><span class="pl-pds">"</span>fastq<span class="pl-pds">"</span></span> <span class="pl-e">label</span>=<span class="pl-s"><span class="pl-pds">"</span>Forward NGS Read File<span class="pl-pds">"</span></span>/></td>
|
|
|
994 </tr>
|
|
|
995 <tr>
|
|
|
996 <td id="L69" class="blob-num js-line-number" data-line-number="69"></td>
|
|
|
997 <td id="LC69" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">param</span> <span class="pl-e">name</span>=<span class="pl-s"><span class="pl-pds">"</span>reverse<span class="pl-pds">"</span></span> <span class="pl-e">type</span>=<span class="pl-s"><span class="pl-pds">"</span>data<span class="pl-pds">"</span></span> <span class="pl-e">format</span>=<span class="pl-s"><span class="pl-pds">"</span>fastq<span class="pl-pds">"</span></span> <span class="pl-e">label</span>=<span class="pl-s"><span class="pl-pds">"</span>Reverse NGS Read File<span class="pl-pds">"</span></span>/></td>
|
|
|
998 </tr>
|
|
|
999 <tr>
|
|
|
1000 <td id="L70" class="blob-num js-line-number" data-line-number="70"></td>
|
|
|
1001 <td id="LC70" class="blob-code blob-code-inner js-file-line"> </<span class="pl-ent">when</span>></td>
|
|
|
1002 </tr>
|
|
|
1003 <tr>
|
|
|
1004 <td id="L71" class="blob-num js-line-number" data-line-number="71"></td>
|
|
|
1005 <td id="LC71" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">when</span> value = <span class="pl-s"><span class="pl-pds">"</span>Contig available<span class="pl-pds">"</span></span>></td>
|
|
|
1006 </tr>
|
|
|
1007 <tr>
|
|
|
1008 <td id="L72" class="blob-num js-line-number" data-line-number="72"></td>
|
|
|
1009 <td id="LC72" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">param</span> <span class="pl-e">name</span>=<span class="pl-s"><span class="pl-pds">"</span>contig<span class="pl-pds">"</span></span> <span class="pl-e">type</span>=<span class="pl-s"><span class="pl-pds">"</span>data<span class="pl-pds">"</span></span> <span class="pl-e">format</span>=<span class="pl-s"><span class="pl-pds">"</span>fasta<span class="pl-pds">"</span></span> <span class="pl-e">label</span>=<span class="pl-s"><span class="pl-pds">"</span>Contig file<span class="pl-pds">"</span></span>/></td>
|
|
|
1010 </tr>
|
|
|
1011 <tr>
|
|
|
1012 <td id="L73" class="blob-num js-line-number" data-line-number="73"></td>
|
|
|
1013 <td id="LC73" class="blob-code blob-code-inner js-file-line"> </<span class="pl-ent">when</span>></td>
|
|
|
1014 </tr>
|
|
|
1015 <tr>
|
|
|
1016 <td id="L74" class="blob-num js-line-number" data-line-number="74"></td>
|
|
|
1017 <td id="LC74" class="blob-code blob-code-inner js-file-line"> </<span class="pl-ent">conditional</span>></td>
|
|
|
1018 </tr>
|
|
|
1019 <tr>
|
|
|
1020 <td id="L75" class="blob-num js-line-number" data-line-number="75"></td>
|
|
|
1021 <td id="LC75" class="blob-code blob-code-inner js-file-line"> </<span class="pl-ent">when</span>></td>
|
|
|
1022 </tr>
|
|
|
1023 <tr>
|
|
|
1024 <td id="L76" class="blob-num js-line-number" data-line-number="76"></td>
|
|
|
1025 <td id="LC76" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">when</span> value = <span class="pl-s"><span class="pl-pds">"</span>Transcriptomic<span class="pl-pds">"</span></span>></td>
|
|
|
1026 </tr>
|
|
|
1027 <tr>
|
|
|
1028 <td id="L77" class="blob-num js-line-number" data-line-number="77"></td>
|
|
|
1029 <td id="LC77" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">param</span> name = <span class="pl-s"><span class="pl-pds">"</span>strain<span class="pl-pds">"</span></span> <span class="pl-e">type</span>=<span class="pl-s"><span class="pl-pds">"</span>select<span class="pl-pds">"</span></span> label = <span class="pl-s"><span class="pl-pds">"</span>Select Reference Strain<span class="pl-pds">"</span></span>></td>
|
|
|
1030 </tr>
|
|
|
1031 <tr>
|
|
|
1032 <td id="L78" class="blob-num js-line-number" data-line-number="78"></td>
|
|
|
1033 <td id="LC78" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">option</span> value = <span class="pl-s"><span class="pl-pds">"</span>Tc148<span class="pl-pds">"</span></span>></<span class="pl-ent">option</span>></td>
|
|
|
1034 </tr>
|
|
|
1035 <tr>
|
|
|
1036 <td id="L79" class="blob-num js-line-number" data-line-number="79"></td>
|
|
|
1037 <td id="LC79" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">option</span> value = <span class="pl-s"><span class="pl-pds">"</span>IL3000<span class="pl-pds">"</span></span>></<span class="pl-ent">option</span>></td>
|
|
|
1038 </tr>
|
|
|
1039 <tr>
|
|
|
1040 <td id="L80" class="blob-num js-line-number" data-line-number="80"></td>
|
|
|
1041 <td id="LC80" class="blob-code blob-code-inner js-file-line"> </<span class="pl-ent">param</span>></td>
|
|
|
1042 </tr>
|
|
|
1043 <tr>
|
|
|
1044 <td id="L81" class="blob-num js-line-number" data-line-number="81"></td>
|
|
|
1045 <td id="LC81" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">param</span> <span class="pl-e">name</span>=<span class="pl-s"><span class="pl-pds">"</span>forward<span class="pl-pds">"</span></span> <span class="pl-e">type</span>=<span class="pl-s"><span class="pl-pds">"</span>data<span class="pl-pds">"</span></span> <span class="pl-e">format</span>=<span class="pl-s"><span class="pl-pds">"</span>fastq<span class="pl-pds">"</span></span> <span class="pl-e">label</span>=<span class="pl-s"><span class="pl-pds">"</span>Forward NGS Read File<span class="pl-pds">"</span></span>/></td>
|
|
|
1046 </tr>
|
|
|
1047 <tr>
|
|
|
1048 <td id="L82" class="blob-num js-line-number" data-line-number="82"></td>
|
|
|
1049 <td id="LC82" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">param</span> <span class="pl-e">name</span>=<span class="pl-s"><span class="pl-pds">"</span>reverse<span class="pl-pds">"</span></span> <span class="pl-e">type</span>=<span class="pl-s"><span class="pl-pds">"</span>data<span class="pl-pds">"</span></span> <span class="pl-e">format</span>=<span class="pl-s"><span class="pl-pds">"</span>fastq<span class="pl-pds">"</span></span> <span class="pl-e">label</span>=<span class="pl-s"><span class="pl-pds">"</span>Reverse NGS Read File<span class="pl-pds">"</span></span>/></td>
|
|
|
1050 </tr>
|
|
|
1051 <tr>
|
|
|
1052 <td id="L83" class="blob-num js-line-number" data-line-number="83"></td>
|
|
|
1053 <td id="LC83" class="blob-code blob-code-inner js-file-line"> </<span class="pl-ent">when</span>></td>
|
|
|
1054 </tr>
|
|
|
1055 <tr>
|
|
|
1056 <td id="L84" class="blob-num js-line-number" data-line-number="84"></td>
|
|
|
1057 <td id="LC84" class="blob-code blob-code-inner js-file-line"> </<span class="pl-ent">conditional</span>></td>
|
|
|
1058 </tr>
|
|
|
1059 <tr>
|
|
|
1060 <td id="L85" class="blob-num js-line-number" data-line-number="85"></td>
|
|
|
1061 <td id="LC85" class="blob-code blob-code-inner js-file-line"> </<span class="pl-ent">when</span>></td>
|
|
|
1062 </tr>
|
|
|
1063 <tr>
|
|
|
1064 <td id="L86" class="blob-num js-line-number" data-line-number="86"></td>
|
|
|
1065 <td id="LC86" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">when</span> <span class="pl-e">value</span>=<span class="pl-s"><span class="pl-pds">"</span>Trypanosoma vivax<span class="pl-pds">"</span></span>></td>
|
|
|
1066 </tr>
|
|
|
1067 <tr>
|
|
|
1068 <td id="L87" class="blob-num js-line-number" data-line-number="87"></td>
|
|
|
1069 <td id="LC87" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">conditional</span> name = <span class="pl-s"><span class="pl-pds">"</span>GT<span class="pl-pds">"</span></span>></td>
|
|
|
1070 </tr>
|
|
|
1071 <tr>
|
|
|
1072 <td id="L88" class="blob-num js-line-number" data-line-number="88"></td>
|
|
|
1073 <td id="LC88" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">param</span> <span class="pl-e">name</span>=<span class="pl-s"><span class="pl-pds">"</span>analysis<span class="pl-pds">"</span></span> type = <span class="pl-s"><span class="pl-pds">"</span>select<span class="pl-pds">"</span></span> label = <span class="pl-s"><span class="pl-pds">"</span>Genomic or Transcriptomic Analysis?<span class="pl-pds">"</span></span>></td>
|
|
|
1074 </tr>
|
|
|
1075 <tr>
|
|
|
1076 <td id="L89" class="blob-num js-line-number" data-line-number="89"></td>
|
|
|
1077 <td id="LC89" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">option</span> value = <span class="pl-s"><span class="pl-pds">"</span>Genomic<span class="pl-pds">"</span></span> selected = <span class="pl-s"><span class="pl-pds">"</span>true<span class="pl-pds">"</span></span>></<span class="pl-ent">option</span>></td>
|
|
|
1078 </tr>
|
|
|
1079 <tr>
|
|
|
1080 <td id="L90" class="blob-num js-line-number" data-line-number="90"></td>
|
|
|
1081 <td id="LC90" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">option</span> value = <span class="pl-s"><span class="pl-pds">"</span>Transcriptomic<span class="pl-pds">"</span></span>></<span class="pl-ent">option</span>></td>
|
|
|
1082 </tr>
|
|
|
1083 <tr>
|
|
|
1084 <td id="L91" class="blob-num js-line-number" data-line-number="91"></td>
|
|
|
1085 <td id="LC91" class="blob-code blob-code-inner js-file-line"> </<span class="pl-ent">param</span>></td>
|
|
|
1086 </tr>
|
|
|
1087 <tr>
|
|
|
1088 <td id="L92" class="blob-num js-line-number" data-line-number="92"></td>
|
|
|
1089 <td id="LC92" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">when</span> value = <span class="pl-s"><span class="pl-pds">"</span>Genomic<span class="pl-pds">"</span></span>></td>
|
|
|
1090 </tr>
|
|
|
1091 <tr>
|
|
|
1092 <td id="L93" class="blob-num js-line-number" data-line-number="93"></td>
|
|
|
1093 <td id="LC93" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">conditional</span> name = <span class="pl-s"><span class="pl-pds">"</span>contigs<span class="pl-pds">"</span></span>></td>
|
|
|
1094 </tr>
|
|
|
1095 <tr>
|
|
|
1096 <td id="L94" class="blob-num js-line-number" data-line-number="94"></td>
|
|
|
1097 <td id="LC94" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">param</span> name = <span class="pl-s"><span class="pl-pds">"</span>preassem<span class="pl-pds">"</span></span> type = <span class="pl-s"><span class="pl-pds">"</span>select<span class="pl-pds">"</span></span> label = <span class="pl-s"><span class="pl-pds">"</span>Contig file available?<span class="pl-pds">"</span></span>></td>
|
|
|
1098 </tr>
|
|
|
1099 <tr>
|
|
|
1100 <td id="L95" class="blob-num js-line-number" data-line-number="95"></td>
|
|
|
1101 <td id="LC95" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">option</span> value = <span class="pl-s"><span class="pl-pds">"</span>Full assembly<span class="pl-pds">"</span></span> selected = <span class="pl-s"><span class="pl-pds">"</span>true<span class="pl-pds">"</span></span>></<span class="pl-ent">option</span>></td>
|
|
|
1102 </tr>
|
|
|
1103 <tr>
|
|
|
1104 <td id="L96" class="blob-num js-line-number" data-line-number="96"></td>
|
|
|
1105 <td id="LC96" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">option</span> value = <span class="pl-s"><span class="pl-pds">"</span>Contig available<span class="pl-pds">"</span></span>></<span class="pl-ent">option</span>></td>
|
|
|
1106 </tr>
|
|
|
1107 <tr>
|
|
|
1108 <td id="L97" class="blob-num js-line-number" data-line-number="97"></td>
|
|
|
1109 <td id="LC97" class="blob-code blob-code-inner js-file-line"> </<span class="pl-ent">param</span>></td>
|
|
|
1110 </tr>
|
|
|
1111 <tr>
|
|
|
1112 <td id="L98" class="blob-num js-line-number" data-line-number="98"></td>
|
|
|
1113 <td id="LC98" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">when</span> value = <span class="pl-s"><span class="pl-pds">"</span>Full assembly<span class="pl-pds">"</span></span>></td>
|
|
|
1114 </tr>
|
|
|
1115 <tr>
|
|
|
1116 <td id="L99" class="blob-num js-line-number" data-line-number="99"></td>
|
|
|
1117 <td id="LC99" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">param</span> name = <span class="pl-s"><span class="pl-pds">"</span>kmers<span class="pl-pds">"</span></span> <span class="pl-e">type</span>=<span class="pl-s"><span class="pl-pds">"</span>integer<span class="pl-pds">"</span></span> <span class="pl-e">value</span>=<span class="pl-s"><span class="pl-pds">"</span>65<span class="pl-pds">"</span></span> <span class="pl-e">min</span>=<span class="pl-s"><span class="pl-pds">"</span>31<span class="pl-pds">"</span></span> <span class="pl-e">max</span>=<span class="pl-s"><span class="pl-pds">"</span>99<span class="pl-pds">"</span></span> label = <span class="pl-s"><span class="pl-pds">"</span>Specify kmers<span class="pl-pds">"</span></span>></<span class="pl-ent">param</span>></td>
|
|
|
1118 </tr>
|
|
|
1119 <tr>
|
|
|
1120 <td id="L100" class="blob-num js-line-number" data-line-number="100"></td>
|
|
|
1121 <td id="LC100" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">param</span> name = <span class="pl-s"><span class="pl-pds">"</span>inslen<span class="pl-pds">"</span></span> <span class="pl-e">type</span>=<span class="pl-s"><span class="pl-pds">"</span>integer<span class="pl-pds">"</span></span> <span class="pl-e">value</span>=<span class="pl-s"><span class="pl-pds">"</span>400<span class="pl-pds">"</span></span> <span class="pl-e">min</span>=<span class="pl-s"><span class="pl-pds">"</span>1<span class="pl-pds">"</span></span> <span class="pl-e">max</span>=<span class="pl-s"><span class="pl-pds">"</span>999<span class="pl-pds">"</span></span> label = <span class="pl-s"><span class="pl-pds">"</span>Insert length<span class="pl-pds">"</span></span>></<span class="pl-ent">param</span>></td>
|
|
|
1122 </tr>
|
|
|
1123 <tr>
|
|
|
1124 <td id="L101" class="blob-num js-line-number" data-line-number="101"></td>
|
|
|
1125 <td id="LC101" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">param</span> <span class="pl-e">name</span>=<span class="pl-s"><span class="pl-pds">"</span>forward<span class="pl-pds">"</span></span> <span class="pl-e">type</span>=<span class="pl-s"><span class="pl-pds">"</span>data<span class="pl-pds">"</span></span> <span class="pl-e">format</span>=<span class="pl-s"><span class="pl-pds">"</span>fastq<span class="pl-pds">"</span></span> <span class="pl-e">label</span>=<span class="pl-s"><span class="pl-pds">"</span>Forward NGS Read File<span class="pl-pds">"</span></span>/></td>
|
|
|
1126 </tr>
|
|
|
1127 <tr>
|
|
|
1128 <td id="L102" class="blob-num js-line-number" data-line-number="102"></td>
|
|
|
1129 <td id="LC102" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">param</span> <span class="pl-e">name</span>=<span class="pl-s"><span class="pl-pds">"</span>reverse<span class="pl-pds">"</span></span> <span class="pl-e">type</span>=<span class="pl-s"><span class="pl-pds">"</span>data<span class="pl-pds">"</span></span> <span class="pl-e">format</span>=<span class="pl-s"><span class="pl-pds">"</span>fastq<span class="pl-pds">"</span></span> <span class="pl-e">label</span>=<span class="pl-s"><span class="pl-pds">"</span>Reverse NGS Read File<span class="pl-pds">"</span></span>/></td>
|
|
|
1130 </tr>
|
|
|
1131 <tr>
|
|
|
1132 <td id="L103" class="blob-num js-line-number" data-line-number="103"></td>
|
|
|
1133 <td id="LC103" class="blob-code blob-code-inner js-file-line"> </<span class="pl-ent">when</span>></td>
|
|
|
1134 </tr>
|
|
|
1135 <tr>
|
|
|
1136 <td id="L104" class="blob-num js-line-number" data-line-number="104"></td>
|
|
|
1137 <td id="LC104" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">when</span> value = <span class="pl-s"><span class="pl-pds">"</span>Contig available<span class="pl-pds">"</span></span>></td>
|
|
|
1138 </tr>
|
|
|
1139 <tr>
|
|
|
1140 <td id="L105" class="blob-num js-line-number" data-line-number="105"></td>
|
|
|
1141 <td id="LC105" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">param</span> <span class="pl-e">name</span>=<span class="pl-s"><span class="pl-pds">"</span>contig<span class="pl-pds">"</span></span> <span class="pl-e">type</span>=<span class="pl-s"><span class="pl-pds">"</span>data<span class="pl-pds">"</span></span> <span class="pl-e">format</span>=<span class="pl-s"><span class="pl-pds">"</span>fasta<span class="pl-pds">"</span></span> <span class="pl-e">label</span>=<span class="pl-s"><span class="pl-pds">"</span>Contig file<span class="pl-pds">"</span></span>/></td>
|
|
|
1142 </tr>
|
|
|
1143 <tr>
|
|
|
1144 <td id="L106" class="blob-num js-line-number" data-line-number="106"></td>
|
|
|
1145 <td id="LC106" class="blob-code blob-code-inner js-file-line"> </<span class="pl-ent">when</span>></td>
|
|
|
1146 </tr>
|
|
|
1147 <tr>
|
|
|
1148 <td id="L107" class="blob-num js-line-number" data-line-number="107"></td>
|
|
|
1149 <td id="LC107" class="blob-code blob-code-inner js-file-line"> </<span class="pl-ent">conditional</span>></td>
|
|
|
1150 </tr>
|
|
|
1151 <tr>
|
|
|
1152 <td id="L108" class="blob-num js-line-number" data-line-number="108"></td>
|
|
|
1153 <td id="LC108" class="blob-code blob-code-inner js-file-line"> </<span class="pl-ent">when</span>> </td>
|
|
|
1154 </tr>
|
|
|
1155 <tr>
|
|
|
1156 <td id="L109" class="blob-num js-line-number" data-line-number="109"></td>
|
|
|
1157 <td id="LC109" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">when</span> value = <span class="pl-s"><span class="pl-pds">"</span>Transcriptomic<span class="pl-pds">"</span></span>></td>
|
|
|
1158 </tr>
|
|
|
1159 <tr>
|
|
|
1160 <td id="L110" class="blob-num js-line-number" data-line-number="110"></td>
|
|
|
1161 <td id="LC110" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">param</span> name = <span class="pl-s"><span class="pl-pds">"</span>vtreference<span class="pl-pds">"</span></span> <span class="pl-e">type</span>=<span class="pl-s"><span class="pl-pds">"</span>data<span class="pl-pds">"</span></span> <span class="pl-e">format</span>=<span class="pl-s"><span class="pl-pds">"</span>fasta<span class="pl-pds">"</span></span> label = <span class="pl-s"><span class="pl-pds">"</span>Reference File<span class="pl-pds">"</span></span>/></td>
|
|
|
1162 </tr>
|
|
|
1163 <tr>
|
|
|
1164 <td id="L111" class="blob-num js-line-number" data-line-number="111"></td>
|
|
|
1165 <td id="LC111" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">param</span> <span class="pl-e">name</span>=<span class="pl-s"><span class="pl-pds">"</span>forward<span class="pl-pds">"</span></span> <span class="pl-e">type</span>=<span class="pl-s"><span class="pl-pds">"</span>data<span class="pl-pds">"</span></span> <span class="pl-e">format</span>=<span class="pl-s"><span class="pl-pds">"</span>fastq<span class="pl-pds">"</span></span> <span class="pl-e">label</span>=<span class="pl-s"><span class="pl-pds">"</span>Forward NGS Read File<span class="pl-pds">"</span></span>/></td>
|
|
|
1166 </tr>
|
|
|
1167 <tr>
|
|
|
1168 <td id="L112" class="blob-num js-line-number" data-line-number="112"></td>
|
|
|
1169 <td id="LC112" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">param</span> <span class="pl-e">name</span>=<span class="pl-s"><span class="pl-pds">"</span>reverse<span class="pl-pds">"</span></span> <span class="pl-e">type</span>=<span class="pl-s"><span class="pl-pds">"</span>data<span class="pl-pds">"</span></span> <span class="pl-e">format</span>=<span class="pl-s"><span class="pl-pds">"</span>fastq<span class="pl-pds">"</span></span> <span class="pl-e">label</span>=<span class="pl-s"><span class="pl-pds">"</span>Reverse NGS Read File<span class="pl-pds">"</span></span>/></td>
|
|
|
1170 </tr>
|
|
|
1171 <tr>
|
|
|
1172 <td id="L113" class="blob-num js-line-number" data-line-number="113"></td>
|
|
|
1173 <td id="LC113" class="blob-code blob-code-inner js-file-line"> </<span class="pl-ent">when</span>></td>
|
|
|
1174 </tr>
|
|
|
1175 <tr>
|
|
|
1176 <td id="L114" class="blob-num js-line-number" data-line-number="114"></td>
|
|
|
1177 <td id="LC114" class="blob-code blob-code-inner js-file-line"> </<span class="pl-ent">conditional</span>></td>
|
|
|
1178 </tr>
|
|
|
1179 <tr>
|
|
|
1180 <td id="L115" class="blob-num js-line-number" data-line-number="115"></td>
|
|
|
1181 <td id="LC115" class="blob-code blob-code-inner js-file-line"> </<span class="pl-ent">when</span>> </td>
|
|
|
1182 </tr>
|
|
|
1183 <tr>
|
|
|
1184 <td id="L116" class="blob-num js-line-number" data-line-number="116"></td>
|
|
|
1185 <td id="LC116" class="blob-code blob-code-inner js-file-line"> </<span class="pl-ent">conditional</span>></td>
|
|
|
1186 </tr>
|
|
|
1187 <tr>
|
|
|
1188 <td id="L117" class="blob-num js-line-number" data-line-number="117"></td>
|
|
|
1189 <td id="LC117" class="blob-code blob-code-inner js-file-line">
|
|
|
1190 </td>
|
|
|
1191 </tr>
|
|
|
1192 <tr>
|
|
|
1193 <td id="L118" class="blob-num js-line-number" data-line-number="118"></td>
|
|
|
1194 <td id="LC118" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">param</span> <span class="pl-e">name</span>=<span class="pl-s"><span class="pl-pds">"</span>P<span class="pl-pds">"</span></span> <span class="pl-e">type</span>=<span class="pl-s"><span class="pl-pds">"</span>boolean<span class="pl-pds">"</span></span> <span class="pl-e">truevalue</span>=<span class="pl-s"><span class="pl-pds">'</span>PDF_Yes<span class="pl-pds">'</span></span> <span class="pl-e">falsevalue</span>=<span class="pl-s"><span class="pl-pds">'</span>PDF_No<span class="pl-pds">'</span></span> <span class="pl-e">label</span>=<span class="pl-s"><span class="pl-pds">"</span>Export PDF of figures<span class="pl-pds">"</span></span> /></td>
|
|
|
1195 </tr>
|
|
|
1196 <tr>
|
|
|
1197 <td id="L119" class="blob-num js-line-number" data-line-number="119"></td>
|
|
|
1198 <td id="LC119" class="blob-code blob-code-inner js-file-line"> </<span class="pl-ent">inputs</span>></td>
|
|
|
1199 </tr>
|
|
|
1200 <tr>
|
|
|
1201 <td id="L120" class="blob-num js-line-number" data-line-number="120"></td>
|
|
|
1202 <td id="LC120" class="blob-code blob-code-inner js-file-line">
|
|
|
1203 </td>
|
|
|
1204 </tr>
|
|
|
1205 <tr>
|
|
|
1206 <td id="L121" class="blob-num js-line-number" data-line-number="121"></td>
|
|
|
1207 <td id="LC121" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">outputs</span>></td>
|
|
|
1208 </tr>
|
|
|
1209 <tr>
|
|
|
1210 <td id="L122" class="blob-num js-line-number" data-line-number="122"></td>
|
|
|
1211 <td id="LC122" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">data</span> <span class="pl-e">format</span>=<span class="pl-s"><span class="pl-pds">"</span>html<span class="pl-pds">"</span></span> name = <span class="pl-s"><span class="pl-pds">"</span>html_file<span class="pl-pds">"</span></span> label = <span class="pl-s"><span class="pl-pds">"</span>${xname.value}_html<span class="pl-pds">"</span></span>/></td>
|
|
|
1212 </tr>
|
|
|
1213 <tr>
|
|
|
1214 <td id="L123" class="blob-num js-line-number" data-line-number="123"></td>
|
|
|
1215 <td id="LC123" class="blob-code blob-code-inner js-file-line"> </<span class="pl-ent">outputs</span>></td>
|
|
|
1216 </tr>
|
|
|
1217 <tr>
|
|
|
1218 <td id="L124" class="blob-num js-line-number" data-line-number="124"></td>
|
|
|
1219 <td id="LC124" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">tests</span>></td>
|
|
|
1220 </tr>
|
|
|
1221 <tr>
|
|
|
1222 <td id="L125" class="blob-num js-line-number" data-line-number="125"></td>
|
|
|
1223 <td id="LC125" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">test</span>></td>
|
|
|
1224 </tr>
|
|
|
1225 <tr>
|
|
|
1226 <td id="L126" class="blob-num js-line-number" data-line-number="126"></td>
|
|
|
1227 <td id="LC126" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">param</span> name = <span class="pl-s"><span class="pl-pds">"</span>xname<span class="pl-pds">"</span></span> value = <span class="pl-s"><span class="pl-pds">"</span>Test<span class="pl-pds">"</span></span>/></td>
|
|
|
1228 </tr>
|
|
|
1229 <tr>
|
|
|
1230 <td id="L127" class="blob-num js-line-number" data-line-number="127"></td>
|
|
|
1231 <td id="LC127" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">conditional</span> name = <span class="pl-s"><span class="pl-pds">"</span>TrypType<span class="pl-pds">"</span></span>></td>
|
|
|
1232 </tr>
|
|
|
1233 <tr>
|
|
|
1234 <td id="L128" class="blob-num js-line-number" data-line-number="128"></td>
|
|
|
1235 <td id="LC128" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">param</span> name = <span class="pl-s"><span class="pl-pds">"</span>species<span class="pl-pds">"</span></span> value = <span class="pl-s"><span class="pl-pds">"</span>Trypanosoma congolense<span class="pl-pds">"</span></span>/></td>
|
|
|
1236 </tr>
|
|
|
1237 <tr>
|
|
|
1238 <td id="L129" class="blob-num js-line-number" data-line-number="129"></td>
|
|
|
1239 <td id="LC129" class="blob-code blob-code-inner js-file-line"> </<span class="pl-ent">conditional</span>></td>
|
|
|
1240 </tr>
|
|
|
1241 <tr>
|
|
|
1242 <td id="L130" class="blob-num js-line-number" data-line-number="130"></td>
|
|
|
1243 <td id="LC130" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">conditional</span> name = <span class="pl-s"><span class="pl-pds">"</span>GT<span class="pl-pds">"</span></span>></td>
|
|
|
1244 </tr>
|
|
|
1245 <tr>
|
|
|
1246 <td id="L131" class="blob-num js-line-number" data-line-number="131"></td>
|
|
|
1247 <td id="LC131" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">param</span> name = <span class="pl-s"><span class="pl-pds">"</span>analysis<span class="pl-pds">"</span></span> value = <span class="pl-s"><span class="pl-pds">"</span>Genomic<span class="pl-pds">"</span></span>/></td>
|
|
|
1248 </tr>
|
|
|
1249 <tr>
|
|
|
1250 <td id="L132" class="blob-num js-line-number" data-line-number="132"></td>
|
|
|
1251 <td id="LC132" class="blob-code blob-code-inner js-file-line"> </<span class="pl-ent">conditional</span>></td>
|
|
|
1252 </tr>
|
|
|
1253 <tr>
|
|
|
1254 <td id="L133" class="blob-num js-line-number" data-line-number="133"></td>
|
|
|
1255 <td id="LC133" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">conditional</span> name = <span class="pl-s"><span class="pl-pds">"</span>contigs<span class="pl-pds">"</span></span>></td>
|
|
|
1256 </tr>
|
|
|
1257 <tr>
|
|
|
1258 <td id="L134" class="blob-num js-line-number" data-line-number="134"></td>
|
|
|
1259 <td id="LC134" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">param</span> name = <span class="pl-s"><span class="pl-pds">"</span>preassem<span class="pl-pds">"</span></span> value = <span class="pl-s"><span class="pl-pds">"</span>Contig available<span class="pl-pds">"</span></span>/></td>
|
|
|
1260 </tr>
|
|
|
1261 <tr>
|
|
|
1262 <td id="L135" class="blob-num js-line-number" data-line-number="135"></td>
|
|
|
1263 <td id="LC135" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">param</span> <span class="pl-e">name</span>=<span class="pl-s"><span class="pl-pds">"</span>contig<span class="pl-pds">"</span></span> value = <span class="pl-s"><span class="pl-pds">"</span>Test.fa<span class="pl-pds">"</span></span>/></td>
|
|
|
1264 </tr>
|
|
|
1265 <tr>
|
|
|
1266 <td id="L136" class="blob-num js-line-number" data-line-number="136"></td>
|
|
|
1267 <td id="LC136" class="blob-code blob-code-inner js-file-line"> </<span class="pl-ent">conditional</span>></td>
|
|
|
1268 </tr>
|
|
|
1269 <tr>
|
|
|
1270 <td id="L137" class="blob-num js-line-number" data-line-number="137"></td>
|
|
|
1271 <td id="LC137" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">param</span> name = <span class="pl-s"><span class="pl-pds">"</span>P<span class="pl-pds">"</span></span> value = <span class="pl-s"><span class="pl-pds">'</span>PDF_No<span class="pl-pds">'</span></span>/></td>
|
|
|
1272 </tr>
|
|
|
1273 <tr>
|
|
|
1274 <td id="L138" class="blob-num js-line-number" data-line-number="138"></td>
|
|
|
1275 <td id="LC138" class="blob-code blob-code-inner js-file-line"> <<span class="pl-ent">output</span> name = <span class="pl-s"><span class="pl-pds">"</span>html_file<span class="pl-pds">"</span></span> file = <span class="pl-s"><span class="pl-pds">'</span>Test_html<span class="pl-pds">'</span></span> ftype = <span class="pl-s"><span class="pl-pds">'</span>html<span class="pl-pds">'</span></span>/></td>
|
|
|
1276 </tr>
|
|
|
1277 <tr>
|
|
|
1278 <td id="L139" class="blob-num js-line-number" data-line-number="139"></td>
|
|
|
1279 <td id="LC139" class="blob-code blob-code-inner js-file-line"> </<span class="pl-ent">test</span>></td>
|
|
|
1280 </tr>
|
|
|
1281 <tr>
|
|
|
1282 <td id="L140" class="blob-num js-line-number" data-line-number="140"></td>
|
|
|
1283 <td id="LC140" class="blob-code blob-code-inner js-file-line"> </<span class="pl-ent">tests</span>></td>
|
|
|
1284 </tr>
|
|
|
1285 <tr>
|
|
|
1286 <td id="L141" class="blob-num js-line-number" data-line-number="141"></td>
|
|
|
1287 <td id="LC141" class="blob-code blob-code-inner js-file-line"></<span class="pl-ent">tool</span>></td>
|
|
|
1288 </tr>
|
|
|
1289 <tr>
|
|
|
1290 <td id="L142" class="blob-num js-line-number" data-line-number="142"></td>
|
|
|
1291 <td id="LC142" class="blob-code blob-code-inner js-file-line">
|
|
|
1292 </td>
|
|
|
1293 </tr>
|
|
|
1294 </table>
|
|
|
1295
|
|
|
1296 <details class="details-reset details-overlay BlobToolbar position-absolute js-file-line-actions dropdown d-none" aria-hidden="true">
|
|
|
1297 <summary class="btn-octicon ml-0 px-2 p-0 bg-white border border-gray-dark rounded-1" aria-label="Inline file action toolbar">
|
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1298 <svg class="octicon octicon-kebab-horizontal" viewBox="0 0 13 16" version="1.1" width="13" height="16" aria-hidden="true"><path fill-rule="evenodd" d="M1.5 9a1.5 1.5 0 1 0 0-3 1.5 1.5 0 0 0 0 3zm5 0a1.5 1.5 0 1 0 0-3 1.5 1.5 0 0 0 0 3zM13 7.5a1.5 1.5 0 1 1-3 0 1.5 1.5 0 0 1 3 0z"/></svg>
|
|
|
1299 </summary>
|
|
|
1300 <details-menu>
|
|
|
1301 <ul class="BlobToolbar-dropdown dropdown-menu dropdown-menu-se mt-2" style="width:185px">
|
|
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1302 <li><clipboard-copy role="menuitem" class="dropdown-item" id="js-copy-lines" style="cursor:pointer;" data-original-text="Copy lines">Copy lines</clipboard-copy></li>
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1303 <li><clipboard-copy role="menuitem" class="dropdown-item" id="js-copy-permalink" style="cursor:pointer;" data-original-text="Copy permalink">Copy permalink</clipboard-copy></li>
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1304 <li><a class="dropdown-item js-update-url-with-hash" id="js-view-git-blame" role="menuitem" href="/johnheap/VAPPER-Galaxy/blame/a4e16d71fe985f389930c02f94354b87d3aabadb/VAP.xml">View git blame</a></li>
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|
|
1305 <li><a class="dropdown-item" id="js-new-issue" role="menuitem" href="/johnheap/VAPPER-Galaxy/issues/new">Reference in new issue</a></li>
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|
|
1306 </ul>
|
|
|
1307 </details-menu>
|
|
|
1308 </details>
|
|
|
1309
|
|
|
1310 </div>
|
|
|
1311
|
|
|
1312 </div>
|
|
|
1313
|
|
|
1314
|
|
|
1315
|
|
|
1316 <details class="details-reset details-overlay details-overlay-dark">
|
|
|
1317 <summary data-hotkey="l" aria-label="Jump to line"></summary>
|
|
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1318 <details-dialog class="Box Box--overlay d-flex flex-column anim-fade-in fast linejump" aria-label="Jump to line">
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|
|
1319 <!-- '"` --><!-- </textarea></xmp> --></option></form><form class="js-jump-to-line-form Box-body d-flex" action="" accept-charset="UTF-8" method="get"><input name="utf8" type="hidden" value="✓" />
|
|
|
1320 <input class="form-control flex-auto mr-3 linejump-input js-jump-to-line-field" type="text" placeholder="Jump to line…" aria-label="Jump to line" autofocus>
|
|
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1321 <button type="submit" class="btn" data-close-dialog>Go</button>
|
|
|
1322 </form> </details-dialog>
|
|
|
1323 </details>
|
|
|
1324
|
|
|
1325
|
|
|
1326
|
|
|
1327 </div>
|
|
|
1328 <div class="modal-backdrop js-touch-events"></div>
|
|
|
1329 </div>
|
|
|
1330
|
|
|
1331 </main>
|
|
|
1332 </div>
|
|
|
1333
|
|
|
1334
|
|
|
1335 </div>
|
|
|
1336
|
|
|
1337
|
|
|
1338 <div class="footer container-lg width-full p-responsive" role="contentinfo">
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1339 <div class="position-relative d-flex flex-row-reverse flex-lg-row flex-wrap flex-lg-nowrap flex-justify-center flex-lg-justify-between pt-6 pb-2 mt-6 f6 text-gray border-top border-gray-light ">
|
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1340 <ul class="list-style-none d-flex flex-wrap col-12 col-lg-5 flex-justify-center flex-lg-justify-between mb-2 mb-lg-0">
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1341 <li class="mr-3 mr-lg-0">© 2019 <span title="1.77313s from unicorn-7478f9985c-h7jrf">GitHub</span>, Inc.</li>
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1342 <li class="mr-3 mr-lg-0"><a data-ga-click="Footer, go to terms, text:terms" href="https://github.com/site/terms">Terms</a></li>
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1343 <li class="mr-3 mr-lg-0"><a data-ga-click="Footer, go to privacy, text:privacy" href="https://github.com/site/privacy">Privacy</a></li>
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1344 <li class="mr-3 mr-lg-0"><a data-ga-click="Footer, go to security, text:security" href="https://github.com/security">Security</a></li>
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1345 <li class="mr-3 mr-lg-0"><a href="https://githubstatus.com/" data-ga-click="Footer, go to status, text:status">Status</a></li>
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1346 <li><a data-ga-click="Footer, go to help, text:help" href="https://help.github.com">Help</a></li>
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1347 </ul>
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1348
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1349 <a aria-label="Homepage" title="GitHub" class="footer-octicon d-none d-lg-block mx-lg-4" href="https://github.com">
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1350 <svg height="24" class="octicon octicon-mark-github" viewBox="0 0 16 16" version="1.1" width="24" aria-hidden="true"><path fill-rule="evenodd" d="M8 0C3.58 0 0 3.58 0 8c0 3.54 2.29 6.53 5.47 7.59.4.07.55-.17.55-.38 0-.19-.01-.82-.01-1.49-2.01.37-2.53-.49-2.69-.94-.09-.23-.48-.94-.82-1.13-.28-.15-.68-.52-.01-.53.63-.01 1.08.58 1.23.82.72 1.21 1.87.87 2.33.66.07-.52.28-.87.51-1.07-1.78-.2-3.64-.89-3.64-3.95 0-.87.31-1.59.82-2.15-.08-.2-.36-1.02.08-2.12 0 0 .67-.21 2.2.82.64-.18 1.32-.27 2-.27.68 0 1.36.09 2 .27 1.53-1.04 2.2-.82 2.2-.82.44 1.1.16 1.92.08 2.12.51.56.82 1.27.82 2.15 0 3.07-1.87 3.75-3.65 3.95.29.25.54.73.54 1.48 0 1.07-.01 1.93-.01 2.2 0 .21.15.46.55.38A8.013 8.013 0 0 0 16 8c0-4.42-3.58-8-8-8z"/></svg>
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1351 </a>
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1352 <ul class="list-style-none d-flex flex-wrap col-12 col-lg-5 flex-justify-center flex-lg-justify-between mb-2 mb-lg-0">
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1353 <li class="mr-3 mr-lg-0"><a data-ga-click="Footer, go to contact, text:contact" href="https://github.com/contact">Contact GitHub</a></li>
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1354 <li class="mr-3 mr-lg-0"><a href="https://github.com/pricing" data-ga-click="Footer, go to Pricing, text:Pricing">Pricing</a></li>
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1355 <li class="mr-3 mr-lg-0"><a href="https://developer.github.com" data-ga-click="Footer, go to api, text:api">API</a></li>
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1356 <li class="mr-3 mr-lg-0"><a href="https://training.github.com" data-ga-click="Footer, go to training, text:training">Training</a></li>
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1357 <li class="mr-3 mr-lg-0"><a href="https://github.blog" data-ga-click="Footer, go to blog, text:blog">Blog</a></li>
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1358 <li><a data-ga-click="Footer, go to about, text:about" href="https://github.com/about">About</a></li>
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1359
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1360 </ul>
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1361 </div>
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1362 <div class="d-flex flex-justify-center pb-6">
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1363 <span class="f6 text-gray-light"></span>
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1364 </div>
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1365 </div>
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1366
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1367
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1368
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1369 <div id="ajax-error-message" class="ajax-error-message flash flash-error">
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|
1370 <svg class="octicon octicon-alert" viewBox="0 0 16 16" version="1.1" width="16" height="16" aria-hidden="true"><path fill-rule="evenodd" d="M8.893 1.5c-.183-.31-.52-.5-.887-.5s-.703.19-.886.5L.138 13.499a.98.98 0 0 0 0 1.001c.193.31.53.501.886.501h13.964c.367 0 .704-.19.877-.5a1.03 1.03 0 0 0 .01-1.002L8.893 1.5zm.133 11.497H6.987v-2.003h2.039v2.003zm0-3.004H6.987V5.987h2.039v4.006z"/></svg>
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1371 <button type="button" class="flash-close js-ajax-error-dismiss" aria-label="Dismiss error">
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|
1372 <svg class="octicon octicon-x" viewBox="0 0 12 16" version="1.1" width="12" height="16" aria-hidden="true"><path fill-rule="evenodd" d="M7.48 8l3.75 3.75-1.48 1.48L6 9.48l-3.75 3.75-1.48-1.48L4.52 8 .77 4.25l1.48-1.48L6 6.52l3.75-3.75 1.48 1.48L7.48 8z"/></svg>
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1373 </button>
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1374 You can’t perform that action at this time.
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1375 </div>
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1376
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1377
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1378 <script crossorigin="anonymous" integrity="sha512-EPrD+nddbyhpiLL8l3M8VfJpZr4J2EWQLaPXZ+6A3VDJKzS5HeZ3dkMVieHSdvIPHsMbWPyVlY42SWKoS4XTfA==" type="application/javascript" src="https://github.githubassets.com/assets/compat-bootstrap-831f12d4.js"></script>
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|
1379 <script crossorigin="anonymous" integrity="sha512-oFBEYscCdWEyvUQehaYyaCSiKtIN4UvpfFHNpIXLUTSQ35JcacPNj86R8fgJfI1e7BOjbLZPTv1nJg3TECiMLw==" type="application/javascript" src="https://github.githubassets.com/assets/frameworks-7af24171.js"></script>
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1380
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1381 <script crossorigin="anonymous" async="async" integrity="sha512-b9BDH7EZq1yaR2fUH08I378zVkToScLiQ//L0gdyPviliuwpWiVFkB8uW0K8zZszdeLeBpib7wGBLkPiIFgyHg==" type="application/javascript" src="https://github.githubassets.com/assets/github-bootstrap-2a8c2b54.js"></script>
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1382
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1383
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1384
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1385 <div class="js-stale-session-flash stale-session-flash flash flash-warn flash-banner" hidden
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1386 >
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1387 <svg class="octicon octicon-alert" viewBox="0 0 16 16" version="1.1" width="16" height="16" aria-hidden="true"><path fill-rule="evenodd" d="M8.893 1.5c-.183-.31-.52-.5-.887-.5s-.703.19-.886.5L.138 13.499a.98.98 0 0 0 0 1.001c.193.31.53.501.886.501h13.964c.367 0 .704-.19.877-.5a1.03 1.03 0 0 0 .01-1.002L8.893 1.5zm.133 11.497H6.987v-2.003h2.039v2.003zm0-3.004H6.987V5.987h2.039v4.006z"/></svg>
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1388 <span class="signed-in-tab-flash">You signed in with another tab or window. <a href="">Reload</a> to refresh your session.</span>
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1389 <span class="signed-out-tab-flash">You signed out in another tab or window. <a href="">Reload</a> to refresh your session.</span>
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|
1390 </div>
|
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|
1391 <template id="site-details-dialog">
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|
1392 <details class="details-reset details-overlay details-overlay-dark lh-default text-gray-dark hx_rsm" open>
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|
|
1393 <summary role="button" aria-label="Close dialog"></summary>
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|
|
1394 <details-dialog class="Box Box--overlay d-flex flex-column anim-fade-in fast hx_rsm-dialog hx_rsm-modal">
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|
1395 <button class="Box-btn-octicon m-0 btn-octicon position-absolute right-0 top-0" type="button" aria-label="Close dialog" data-close-dialog>
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|
|
1396 <svg class="octicon octicon-x" viewBox="0 0 12 16" version="1.1" width="12" height="16" aria-hidden="true"><path fill-rule="evenodd" d="M7.48 8l3.75 3.75-1.48 1.48L6 9.48l-3.75 3.75-1.48-1.48L4.52 8 .77 4.25l1.48-1.48L6 6.52l3.75-3.75 1.48 1.48L7.48 8z"/></svg>
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1397 </button>
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|
1398 <div class="octocat-spinner my-6 js-details-dialog-spinner"></div>
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1399 </details-dialog>
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1400 </details>
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1401 </template>
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1402
|
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|
1403 <div class="Popover js-hovercard-content position-absolute" style="display: none; outline: none;" tabindex="0">
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|
1404 <div class="Popover-message Popover-message--bottom-left Popover-message--large Box box-shadow-large" style="width:360px;">
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|
1405 </div>
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|
1406 </div>
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|
1407
|
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|
1408 <div aria-live="polite" class="js-global-screen-reader-notice sr-only"></div>
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1409
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1410 </body>
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1411 </html>
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1412
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