bundledThirdPartyDependencies.md

Third Party Dependencies Bundled (in binary form) With PHAT

Windows

• Bowtie2

  • bowtie2
  • bowtie2-align-l.exe
  • bowtie2-align-s.exe
  • bowtie2-build
  • bowtie2-build-l.exe
  • bowtie2-build-s.exe
  • bowtie2-inspect
  • bowtie2-inspect-l.exe
  • bowtie2-inspect-s.exe

• Samtools

  • bcftools.exe
  • bgzip.exe
  • samtools.exe

• Cygwin

  • cygwin1.dll
  • cygz.dll
  • cyggcc_s-eh-1.dll
  • cygstdc++6.dll
  • pthreadGC2.dll

• MinGW

  • libstdc++6.dll

• UCSC Kent Utils

  • faToTwoBit.exe

• Strawberry Perl Portable Edition

  • perl/

• WinPython

  • python/

• SharpZipLib

  • ICSharpCode.SharpZipLib.dll

Linux

• Bowtie2
  • bowtie2
  • bowtie2-align-l
  • bowtie2-align-s
  • bowtie2-build
  • bowtie2-build-l
  • bowtie2-build-s
  • bowtie2-inspect
  • bowtie2-inspect-l
  • bowtie2-inspect-s
• Samtools
  • samtools
• UCSC Kent Utils
  • faToTwoBit

Cross Platform Dependencies (Not from NPM)

• FastQC

  • FastQC/

• Varscan 2.4.2

  • varscan.jar

• Pileup.js

NPM Dependencies

• @claviska/jquery-minicolors 2.2.6
• @types/electron 1.4.33
• @types/fs-extra 0.0.37
• @types/jquery 2.0.40
• @types/mkdirp 0.3.29
• @types/node 7.0.5
• @types/rimraf 0.0.28
• angular 1.6.1
• angularplasmid 1.0.5
• browserify 13.1.0
• bundle-collapser 1.2.1
• dialogs 1.1.19
• electron-builder 19.8.0
• electron-installer-debian 0.5.2
• electron-ipc-stream 0.2.0
• electron-packager 8.0.0
• electron-prebuilt 1.1.2
• electron-squirrel-startup 1.0.0
• electron-winstaller 2.5.2
• fs-backwards-stream 0.0.0
• fs-extra 2.0.0
• github-api 3.0.0
• github-releases 0.3.2
• grunt 1.0.1
• gunzip-maybe 1.4.0
• jquery 2.2.4
• jsdoc 3.4.3
• jsonfile 2.4.0
• minimist 1.2.0
• mkdirp 0.5.1
• nwsjs 0.2.0
• optimize-js 1.0.3
• rimraf 2.6.1
• semi 4.0.5
• semver 5.3.0
• tar-fs 1.15.2
• tar-stream 1.5.2
• typescript 2.2.1
• uglify-es 3.0.4
• uuid 3.0.1