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Port details
fastqc Quality control tool for high throughput sequence data
0.12.1 biology on this many watch lists=2 search for ports that depend on this port Find issues related to this port Report an issue related to this port View this port on Repology. pkg-fallout 0.12.1Version of this port present on the latest quarterly branch.
Maintainer: jwb@FreeBSD.org search for ports maintained by this maintainer
Port Added: 2017-11-30 22:54:38
Last Update: 2023-03-05 00:17:20
Commit Hash: a5b1448
People watching this port, also watch:: jdictionary, py311-Automat, py311-python-gdsii, py39-PyOpenGL, p5-Sane
Also Listed In: java perl5
License: GPLv3
WWW:
https://www.bioinformatics.babraham.ac.uk/projects/fastqc/
Description:
FastQC aims to provide a simple way to do some quality control checks on raw sequence data coming from high throughput sequencing pipelines. It provides a modular set of analyses which you can use to give a quick impression of whether your data has any problems of which you should be aware before doing any further analysis.
Homepage    cgit ¦ Codeberg ¦ GitHub ¦ GitLab ¦ SVNWeb

Manual pages:
FreshPorts has no man page information for this port.
pkg-plist: as obtained via: make generate-plist
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  1. /usr/local/share/licenses/fastqc-0.12.1/catalog.mk
  2. /usr/local/share/licenses/fastqc-0.12.1/LICENSE
  3. /usr/local/share/licenses/fastqc-0.12.1/GPLv3
  4. bin/fastqc
  5. share/fastqc/Configuration/adapter_list.txt
  6. share/fastqc/Configuration/contaminant_list.txt
  7. share/fastqc/Configuration/limits.txt
  8. share/fastqc/Help/1 Introduction/.svn/entries
  9. share/fastqc/Help/1 Introduction/.svn/text-base/1.1 What is FastQC.html.svn-base
  10. share/fastqc/Help/1 Introduction/1.1 What is FastQC.html
  11. share/fastqc/Help/2 Basic Operations/.svn/entries
  12. share/fastqc/Help/2 Basic Operations/.svn/text-base/2.1 Opening a sequence file.html.svn-base
  13. share/fastqc/Help/2 Basic Operations/.svn/text-base/2.2 Evaluating Results.html.svn-base
  14. share/fastqc/Help/2 Basic Operations/.svn/text-base/2.3 Saving a Report.html.svn-base
  15. share/fastqc/Help/2 Basic Operations/2.1 Opening a sequence file.html
  16. share/fastqc/Help/2 Basic Operations/2.2 Evaluating Results.html
  17. share/fastqc/Help/2 Basic Operations/2.3 Saving a Report.html
  18. share/fastqc/Help/3 Analysis Modules/.svn/entries
  19. share/fastqc/Help/3 Analysis Modules/.svn/prop-base/duplication_levels.png.svn-base
  20. share/fastqc/Help/3 Analysis Modules/.svn/prop-base/kmer_profiles.png.svn-base
  21. share/fastqc/Help/3 Analysis Modules/.svn/prop-base/per_base_gc_content.png.svn-base
  22. share/fastqc/Help/3 Analysis Modules/.svn/prop-base/per_base_n_content.png.svn-base
  23. share/fastqc/Help/3 Analysis Modules/.svn/prop-base/per_base_quality.png.svn-base
  24. share/fastqc/Help/3 Analysis Modules/.svn/prop-base/per_base_sequence_content.png.svn-base
  25. share/fastqc/Help/3 Analysis Modules/.svn/prop-base/per_sequence_gc_content.png.svn-base
  26. share/fastqc/Help/3 Analysis Modules/.svn/prop-base/per_sequence_quality.png.svn-base
  27. share/fastqc/Help/3 Analysis Modules/.svn/prop-base/per_tile_quality.png.svn-base
  28. share/fastqc/Help/3 Analysis Modules/.svn/prop-base/sequence_length_distribution.png.svn-base
  29. share/fastqc/Help/3 Analysis Modules/.svn/text-base/1 Basic Statistics.html.svn-base
  30. share/fastqc/Help/3 Analysis Modules/.svn/text-base/10 Adapter Content.html.svn-base
  31. share/fastqc/Help/3 Analysis Modules/.svn/text-base/11 Kmer Content.html.svn-base
  32. share/fastqc/Help/3 Analysis Modules/.svn/text-base/12 Per Tile Sequence Quality.html.svn-base
  33. share/fastqc/Help/3 Analysis Modules/.svn/text-base/2 Per Base Sequence Quality.html.svn-base
  34. share/fastqc/Help/3 Analysis Modules/.svn/text-base/3 Per Sequence Quality Scores.html.svn-base
  35. share/fastqc/Help/3 Analysis Modules/.svn/text-base/4 Per Base Sequence Content.html.svn-base
  36. share/fastqc/Help/3 Analysis Modules/.svn/text-base/5 Per Sequence GC Content.html.svn-base
  37. share/fastqc/Help/3 Analysis Modules/.svn/text-base/6 Per Base N Content.html.svn-base
  38. share/fastqc/Help/3 Analysis Modules/.svn/text-base/7 Sequence Length Distribution.html.svn-base
  39. share/fastqc/Help/3 Analysis Modules/.svn/text-base/8 Duplicate Sequences.html.svn-base
  40. share/fastqc/Help/3 Analysis Modules/.svn/text-base/9 Overrepresented Sequences.html.svn-base
  41. share/fastqc/Help/3 Analysis Modules/.svn/text-base/duplication_levels.png.svn-base
  42. share/fastqc/Help/3 Analysis Modules/.svn/text-base/kmer_profiles.png.svn-base
  43. share/fastqc/Help/3 Analysis Modules/.svn/text-base/per_base_gc_content.png.svn-base
  44. share/fastqc/Help/3 Analysis Modules/.svn/text-base/per_base_n_content.png.svn-base
  45. share/fastqc/Help/3 Analysis Modules/.svn/text-base/per_base_quality.png.svn-base
  46. share/fastqc/Help/3 Analysis Modules/.svn/text-base/per_base_sequence_content.png.svn-base
  47. share/fastqc/Help/3 Analysis Modules/.svn/text-base/per_sequence_gc_content.png.svn-base
  48. share/fastqc/Help/3 Analysis Modules/.svn/text-base/per_sequence_quality.png.svn-base
  49. share/fastqc/Help/3 Analysis Modules/.svn/text-base/per_tile_quality.png.svn-base
  50. share/fastqc/Help/3 Analysis Modules/.svn/text-base/sequence_length_distribution.png.svn-base
  51. share/fastqc/Help/3 Analysis Modules/1 Basic Statistics.html
  52. share/fastqc/Help/3 Analysis Modules/10 Adapter Content.html
  53. share/fastqc/Help/3 Analysis Modules/11 Kmer Content.html
  54. share/fastqc/Help/3 Analysis Modules/12 Per Tile Sequence Quality.html
  55. share/fastqc/Help/3 Analysis Modules/2 Per Base Sequence Quality.html
  56. share/fastqc/Help/3 Analysis Modules/3 Per Sequence Quality Scores.html
  57. share/fastqc/Help/3 Analysis Modules/4 Per Base Sequence Content.html
  58. share/fastqc/Help/3 Analysis Modules/5 Per Sequence GC Content.html
  59. share/fastqc/Help/3 Analysis Modules/6 Per Base N Content.html
  60. share/fastqc/Help/3 Analysis Modules/7 Sequence Length Distribution.html
  61. share/fastqc/Help/3 Analysis Modules/8 Duplicate Sequences.html
  62. share/fastqc/Help/3 Analysis Modules/9 Overrepresented Sequences.html
  63. share/fastqc/Help/3 Analysis Modules/duplication_levels.png
  64. share/fastqc/Help/3 Analysis Modules/kmer_profiles.png
  65. share/fastqc/Help/3 Analysis Modules/per_base_gc_content.png
  66. share/fastqc/Help/3 Analysis Modules/per_base_n_content.png
  67. share/fastqc/Help/3 Analysis Modules/per_base_quality.png
  68. share/fastqc/Help/3 Analysis Modules/per_base_sequence_content.png
  69. share/fastqc/Help/3 Analysis Modules/per_sequence_gc_content.png
  70. share/fastqc/Help/3 Analysis Modules/per_sequence_quality.png
  71. share/fastqc/Help/3 Analysis Modules/per_tile_quality.png
  72. share/fastqc/Help/3 Analysis Modules/sequence_length_distribution.png
  73. share/fastqc/Templates/Icons/error.png
  74. share/fastqc/Templates/Icons/fastqc_icon.png
  75. share/fastqc/Templates/Icons/tick.png
  76. share/fastqc/Templates/Icons/warning.png
  77. share/fastqc/Templates/fastqc2fo.xsl
  78. share/fastqc/Templates/header_template.html
  79. share/java/classes/fastqc/cisd-jhdf5.jar
  80. share/java/classes/fastqc/htsjdk.jar
  81. share/java/classes/fastqc/jbzip2-0.9.jar
  82. share/java/classes/fastqc/net/sourceforge/iharder/base64/Base64$1.class
  83. share/java/classes/fastqc/net/sourceforge/iharder/base64/Base64$InputStream.class
  84. share/java/classes/fastqc/net/sourceforge/iharder/base64/Base64$OutputStream.class
  85. share/java/classes/fastqc/net/sourceforge/iharder/base64/Base64.class
  86. share/java/classes/fastqc/org/apache/commons/math3/analysis/UnivariateFunction.class
  87. share/java/classes/fastqc/org/apache/commons/math3/analysis/solvers/AbstractUnivariateSolver.class
  88. share/java/classes/fastqc/org/apache/commons/math3/analysis/solvers/AllowedSolution.class
  89. share/java/classes/fastqc/org/apache/commons/math3/analysis/solvers/BaseAbstractUnivariateSolver.class
  90. share/java/classes/fastqc/org/apache/commons/math3/analysis/solvers/BaseUnivariateSolver.class
  91. share/java/classes/fastqc/org/apache/commons/math3/analysis/solvers/BracketedUnivariateSolver.class
  92. share/java/classes/fastqc/org/apache/commons/math3/analysis/solvers/BrentSolver.class
  93. share/java/classes/fastqc/org/apache/commons/math3/analysis/solvers/UnivariateSolver.class
  94. share/java/classes/fastqc/org/apache/commons/math3/analysis/solvers/UnivariateSolverUtils.class
  95. share/java/classes/fastqc/org/apache/commons/math3/distribution/AbstractIntegerDistribution.class
  96. share/java/classes/fastqc/org/apache/commons/math3/distribution/AbstractRealDistribution$1.class
  97. share/java/classes/fastqc/org/apache/commons/math3/distribution/AbstractRealDistribution.class
  98. share/java/classes/fastqc/org/apache/commons/math3/distribution/BetaDistribution.class
  99. share/java/classes/fastqc/org/apache/commons/math3/distribution/BinomialDistribution.class
  100. share/java/classes/fastqc/org/apache/commons/math3/distribution/CauchyDistribution.class
  101. share/java/classes/fastqc/org/apache/commons/math3/distribution/ChiSquaredDistribution.class
  102. share/java/classes/fastqc/org/apache/commons/math3/distribution/FDistribution.class
  103. share/java/classes/fastqc/org/apache/commons/math3/distribution/GammaDistribution.class
  104. share/java/classes/fastqc/org/apache/commons/math3/distribution/HypergeometricDistribution.class
  105. share/java/classes/fastqc/org/apache/commons/math3/distribution/IntegerDistribution.class
  106. share/java/classes/fastqc/org/apache/commons/math3/distribution/NormalDistribution.class
  107. share/java/classes/fastqc/org/apache/commons/math3/distribution/PascalDistribution.class
  108. share/java/classes/fastqc/org/apache/commons/math3/distribution/PoissonDistribution.class
  109. share/java/classes/fastqc/org/apache/commons/math3/distribution/RealDistribution.class
  110. share/java/classes/fastqc/org/apache/commons/math3/distribution/SaddlePointExpansion.class
  111. share/java/classes/fastqc/org/apache/commons/math3/distribution/TDistribution.class
  112. share/java/classes/fastqc/org/apache/commons/math3/distribution/WeibullDistribution.class
  113. share/java/classes/fastqc/org/apache/commons/math3/distribution/ZipfDistribution.class
  114. share/java/classes/fastqc/org/apache/commons/math3/exception/ConvergenceException.class
  115. share/java/classes/fastqc/org/apache/commons/math3/exception/DimensionMismatchException.class
  116. share/java/classes/fastqc/org/apache/commons/math3/exception/MathArithmeticException.class
  117. share/java/classes/fastqc/org/apache/commons/math3/exception/MathIllegalArgumentException.class
  118. share/java/classes/fastqc/org/apache/commons/math3/exception/MathIllegalNumberException.class
  119. share/java/classes/fastqc/org/apache/commons/math3/exception/MathIllegalStateException.class
  120. share/java/classes/fastqc/org/apache/commons/math3/exception/MathInternalError.class
  121. share/java/classes/fastqc/org/apache/commons/math3/exception/MaxCountExceededException.class
  122. share/java/classes/fastqc/org/apache/commons/math3/exception/NoBracketingException.class
  123. share/java/classes/fastqc/org/apache/commons/math3/exception/NotFiniteNumberException.class
  124. share/java/classes/fastqc/org/apache/commons/math3/exception/NotPositiveException.class
  125. share/java/classes/fastqc/org/apache/commons/math3/exception/NotStrictlyPositiveException.class
  126. share/java/classes/fastqc/org/apache/commons/math3/exception/NullArgumentException.class
  127. share/java/classes/fastqc/org/apache/commons/math3/exception/NumberIsTooLargeException.class
  128. share/java/classes/fastqc/org/apache/commons/math3/exception/NumberIsTooSmallException.class
  129. share/java/classes/fastqc/org/apache/commons/math3/exception/OutOfRangeException.class
  130. share/java/classes/fastqc/org/apache/commons/math3/exception/TooManyEvaluationsException.class
  131. share/java/classes/fastqc/org/apache/commons/math3/exception/util/ArgUtils.class
  132. share/java/classes/fastqc/org/apache/commons/math3/exception/util/ExceptionContext.class
  133. share/java/classes/fastqc/org/apache/commons/math3/exception/util/ExceptionContextProvider.class
  134. share/java/classes/fastqc/org/apache/commons/math3/exception/util/Localizable.class
  135. share/java/classes/fastqc/org/apache/commons/math3/exception/util/LocalizedFormats.class
  136. share/java/classes/fastqc/org/apache/commons/math3/random/AbstractWell.class
  137. share/java/classes/fastqc/org/apache/commons/math3/random/BitsStreamGenerator.class
  138. share/java/classes/fastqc/org/apache/commons/math3/random/RandomData.class
  139. share/java/classes/fastqc/org/apache/commons/math3/random/RandomDataImpl.class
  140. share/java/classes/fastqc/org/apache/commons/math3/random/RandomGenerator.class
  141. share/java/classes/fastqc/org/apache/commons/math3/random/Well19937c.class
  142. share/java/classes/fastqc/org/apache/commons/math3/special/Beta$1.class
  143. share/java/classes/fastqc/org/apache/commons/math3/special/Beta.class
  144. share/java/classes/fastqc/org/apache/commons/math3/special/Erf.class
  145. share/java/classes/fastqc/org/apache/commons/math3/special/Gamma$1.class
  146. share/java/classes/fastqc/org/apache/commons/math3/special/Gamma.class
  147. share/java/classes/fastqc/org/apache/commons/math3/util/ArithmeticUtils.class
  148. share/java/classes/fastqc/org/apache/commons/math3/util/ContinuedFraction.class
  149. share/java/classes/fastqc/org/apache/commons/math3/util/DoubleArray.class
  150. share/java/classes/fastqc/org/apache/commons/math3/util/FastMath$ExpFracTable.class
  151. share/java/classes/fastqc/org/apache/commons/math3/util/FastMath$ExpIntTable.class
  152. share/java/classes/fastqc/org/apache/commons/math3/util/FastMath$lnMant.class
  153. share/java/classes/fastqc/org/apache/commons/math3/util/FastMath.class
  154. share/java/classes/fastqc/org/apache/commons/math3/util/FastMathCalc.class
  155. share/java/classes/fastqc/org/apache/commons/math3/util/FastMathLiteralArrays.class
  156. share/java/classes/fastqc/org/apache/commons/math3/util/Incrementor$1.class
  157. share/java/classes/fastqc/org/apache/commons/math3/util/Incrementor$MaxCountExceededCallback.class
  158. share/java/classes/fastqc/org/apache/commons/math3/util/Incrementor.class
  159. share/java/classes/fastqc/org/apache/commons/math3/util/MathUtils.class
  160. share/java/classes/fastqc/org/apache/commons/math3/util/Precision.class
  161. share/java/classes/fastqc/org/apache/commons/math3/util/ResizableDoubleArray.class
  162. share/java/classes/fastqc/uk/ac/babraham/FastQC/Analysis/AnalysisListener.class
  163. share/java/classes/fastqc/uk/ac/babraham/FastQC/Analysis/AnalysisQueue.class
  164. share/java/classes/fastqc/uk/ac/babraham/FastQC/Analysis/AnalysisRunner.class
  165. share/java/classes/fastqc/uk/ac/babraham/FastQC/Analysis/OfflineRunner.class
  166. share/java/classes/fastqc/uk/ac/babraham/FastQC/Dialogs/AboutDialog$1.class
  167. share/java/classes/fastqc/uk/ac/babraham/FastQC/Dialogs/AboutDialog.class
  168. share/java/classes/fastqc/uk/ac/babraham/FastQC/Dialogs/FastQCTitlePanel$SmoothJLabel.class
  169. share/java/classes/fastqc/uk/ac/babraham/FastQC/Dialogs/FastQCTitlePanel.class
  170. share/java/classes/fastqc/uk/ac/babraham/FastQC/Dialogs/WelcomePanel.class
  171. share/java/classes/fastqc/uk/ac/babraham/FastQC/FastQCApplication$1.class
  172. share/java/classes/fastqc/uk/ac/babraham/FastQC/FastQCApplication.class
  173. share/java/classes/fastqc/uk/ac/babraham/FastQC/FastQCConfig.class
  174. share/java/classes/fastqc/uk/ac/babraham/FastQC/FastQCMenuBar.class
  175. share/java/classes/fastqc/uk/ac/babraham/FastQC/FileFilters/BAMFileFilter.class
  176. share/java/classes/fastqc/uk/ac/babraham/FastQC/FileFilters/CasavaFastQFileFilter.class
  177. share/java/classes/fastqc/uk/ac/babraham/FastQC/FileFilters/FastQFileFilter.class
  178. share/java/classes/fastqc/uk/ac/babraham/FastQC/FileFilters/GobyFileFilter.class
  179. share/java/classes/fastqc/uk/ac/babraham/FastQC/FileFilters/MappedBAMFileFilter.class
  180. share/java/classes/fastqc/uk/ac/babraham/FastQC/FileFilters/SequenceFileFilter.class
  181. share/java/classes/fastqc/uk/ac/babraham/FastQC/Graphs/BaseGroup.class
  182. share/java/classes/fastqc/uk/ac/babraham/FastQC/Graphs/LineGraph.class
  183. share/java/classes/fastqc/uk/ac/babraham/FastQC/Graphs/QualityBoxPlot.class
  184. share/java/classes/fastqc/uk/ac/babraham/FastQC/Graphs/TileGraph.class
  185. share/java/classes/fastqc/uk/ac/babraham/FastQC/Help/HelpDialog.class
  186. share/java/classes/fastqc/uk/ac/babraham/FastQC/Help/HelpIndexRoot$FileSorter.class
  187. share/java/classes/fastqc/uk/ac/babraham/FastQC/Help/HelpIndexRoot.class
  188. share/java/classes/fastqc/uk/ac/babraham/FastQC/Help/HelpPage.class
  189. share/java/classes/fastqc/uk/ac/babraham/FastQC/Help/HelpPageDisplay$HelpEditor.class
  190. share/java/classes/fastqc/uk/ac/babraham/FastQC/Help/HelpPageDisplay.class
  191. share/java/classes/fastqc/uk/ac/babraham/FastQC/Help/HelpSearchPanel.class
  192. share/java/classes/fastqc/uk/ac/babraham/FastQC/Modules/AbstractQCModule.class
  193. share/java/classes/fastqc/uk/ac/babraham/FastQC/Modules/AdapterContent$Adapter.class
  194. share/java/classes/fastqc/uk/ac/babraham/FastQC/Modules/AdapterContent$ResultsTable.class
  195. share/java/classes/fastqc/uk/ac/babraham/FastQC/Modules/AdapterContent.class
  196. share/java/classes/fastqc/uk/ac/babraham/FastQC/Modules/BasicStats$ResultsTable.class
  197. share/java/classes/fastqc/uk/ac/babraham/FastQC/Modules/BasicStats.class
  198. share/java/classes/fastqc/uk/ac/babraham/FastQC/Modules/DuplicationLevel.class
  199. share/java/classes/fastqc/uk/ac/babraham/FastQC/Modules/GCModel/GCModel.class
  200. share/java/classes/fastqc/uk/ac/babraham/FastQC/Modules/GCModel/GCModelValue.class
  201. share/java/classes/fastqc/uk/ac/babraham/FastQC/Modules/KmerContent$Kmer.class
  202. share/java/classes/fastqc/uk/ac/babraham/FastQC/Modules/KmerContent$ResultsTable.class
  203. share/java/classes/fastqc/uk/ac/babraham/FastQC/Modules/KmerContent.class
  204. share/java/classes/fastqc/uk/ac/babraham/FastQC/Modules/ModuleConfig.class
  205. share/java/classes/fastqc/uk/ac/babraham/FastQC/Modules/ModuleFactory.class
  206. share/java/classes/fastqc/uk/ac/babraham/FastQC/Modules/NContent.class
  207. share/java/classes/fastqc/uk/ac/babraham/FastQC/Modules/OverRepresentedSeqs$OverrepresentedSeq.class
  208. share/java/classes/fastqc/uk/ac/babraham/FastQC/Modules/OverRepresentedSeqs$ResultsTable.class
  209. share/java/classes/fastqc/uk/ac/babraham/FastQC/Modules/OverRepresentedSeqs.class
  210. share/java/classes/fastqc/uk/ac/babraham/FastQC/Modules/PerBaseQualityScores.class
  211. share/java/classes/fastqc/uk/ac/babraham/FastQC/Modules/PerBaseSequenceContent.class
  212. share/java/classes/fastqc/uk/ac/babraham/FastQC/Modules/PerSequenceGCContent.class
  213. share/java/classes/fastqc/uk/ac/babraham/FastQC/Modules/PerSequenceQualityScores.class
  214. share/java/classes/fastqc/uk/ac/babraham/FastQC/Modules/PerTileQualityScores.class
  215. share/java/classes/fastqc/uk/ac/babraham/FastQC/Modules/QCModule.class
  216. share/java/classes/fastqc/uk/ac/babraham/FastQC/Modules/SequenceLengthDistribution.class
  217. share/java/classes/fastqc/uk/ac/babraham/FastQC/Report/HTMLReportArchive.class
  218. share/java/classes/fastqc/uk/ac/babraham/FastQC/Report/stylesheet.txt
  219. share/java/classes/fastqc/uk/ac/babraham/FastQC/Resources/error.png
  220. share/java/classes/fastqc/uk/ac/babraham/FastQC/Resources/fastqc_icon.png
  221. share/java/classes/fastqc/uk/ac/babraham/FastQC/Resources/fastqc_icon.svg
  222. share/java/classes/fastqc/uk/ac/babraham/FastQC/Resources/fastqc_icon_100.png
  223. share/java/classes/fastqc/uk/ac/babraham/FastQC/Resources/tick.png
  224. share/java/classes/fastqc/uk/ac/babraham/FastQC/Resources/warning.png
  225. share/java/classes/fastqc/uk/ac/babraham/FastQC/Results/ResultsPanel$ModuleRenderer.class
  226. share/java/classes/fastqc/uk/ac/babraham/FastQC/Results/ResultsPanel.class
  227. share/java/classes/fastqc/uk/ac/babraham/FastQC/Sequence/BAMFile.class
  228. share/java/classes/fastqc/uk/ac/babraham/FastQC/Sequence/Contaminant/Contaminant.class
  229. share/java/classes/fastqc/uk/ac/babraham/FastQC/Sequence/Contaminant/ContaminantHit.class
  230. share/java/classes/fastqc/uk/ac/babraham/FastQC/Sequence/Contaminant/ContaminentFinder.class
  231. share/java/classes/fastqc/uk/ac/babraham/FastQC/Sequence/Fast5File.class
  232. share/java/classes/fastqc/uk/ac/babraham/FastQC/Sequence/FastQFile.class
  233. share/java/classes/fastqc/uk/ac/babraham/FastQC/Sequence/QualityEncoding/PhredEncoding.class
  234. share/java/classes/fastqc/uk/ac/babraham/FastQC/Sequence/Sequence.class
  235. share/java/classes/fastqc/uk/ac/babraham/FastQC/Sequence/SequenceFactory.class
  236. share/java/classes/fastqc/uk/ac/babraham/FastQC/Sequence/SequenceFile.class
  237. share/java/classes/fastqc/uk/ac/babraham/FastQC/Sequence/SequenceFileGroup.class
  238. share/java/classes/fastqc/uk/ac/babraham/FastQC/Sequence/SequenceFormatException.class
  239. share/java/classes/fastqc/uk/ac/babraham/FastQC/Statistics/NormalDistribution.class
  240. share/java/classes/fastqc/uk/ac/babraham/FastQC/Statistics/PearsonCorrelation.class
  241. share/java/classes/fastqc/uk/ac/babraham/FastQC/Utilities/CasavaBasename.class
  242. share/java/classes/fastqc/uk/ac/babraham/FastQC/Utilities/HotColdColourGradient.class
  243. share/java/classes/fastqc/uk/ac/babraham/FastQC/Utilities/ImageSaver/SVGGenerator$SVGGraphics.class
  244. share/java/classes/fastqc/uk/ac/babraham/FastQC/Utilities/ImageSaver/SVGGenerator.class
  245. share/java/classes/fastqc/uk/ac/babraham/FastQC/Utilities/ImageSaver/SVGImageSaver.class
  246. share/java/classes/fastqc/uk/ac/babraham/FastQC/Utilities/ImageToBase64.class
  247. share/java/classes/fastqc/uk/ac/babraham/FastQC/Utilities/MultiMemberGZIPInputStream.class
  248. share/java/classes/fastqc/uk/ac/babraham/FastQC/Utilities/NameFormatException.class
  249. share/java/classes/fastqc/uk/ac/babraham/FastQC/Utilities/NanoporeBasename.class
  250. share/java/classes/fastqc/uk/ac/babraham/FastQC/Utilities/QualityCount.class
  251. share/java/classes/fastqc/uk/ac/babraham/FastQC/Utilities/RGB.class
  252. @owner
  253. @group
  254. @mode
Collapse this list.
Dependency lines:
  • fastqc>0:biology/fastqc
To install the port:
cd /usr/ports/biology/fastqc/ && make install clean
To add the package, run one of these commands:
  • pkg install biology/fastqc
  • pkg install fastqc
NOTE: If this package has multiple flavors (see below), then use one of them instead of the name specified above.
PKGNAME: fastqc
Flavors: there is no flavor information for this port.
distinfo:
TIMESTAMP = 1677972229 SHA256 (fastqc_v0.12.1.zip) = 5f4dba8780231a25a6b8e11ab2c238601920c9704caa5458d9de559575d58aa7 SIZE (fastqc_v0.12.1.zip) = 11709692

Packages (timestamps in pop-ups are UTC):
fastqc
ABIaarch64amd64armv6armv7i386powerpcpowerpc64powerpc64le
FreeBSD:13:latest0.12.10.12.1-0.12.10.12.1---
FreeBSD:13:quarterly0.12.10.12.10.12.10.12.10.12.1-0.12.10.12.1
FreeBSD:14:latest0.12.10.12.10.11.9-0.12.1--0.12.1
FreeBSD:14:quarterly0.12.10.12.1--0.12.1-0.12.10.12.1
FreeBSD:15:latest0.12.10.12.1n/a-n/a-0.12.10.12.1
Dependencies
NOTE: FreshPorts displays only information on required and default dependencies. Optional dependencies are not covered.
Runtime dependencies:
  1. java : java/openjdk8
  2. perl5>=5.32.r0<5.33 : lang/perl5.32
This port is required by:
for Run
  1. biology/atac-seq
  2. biology/biostar-tools
  3. biology/chip-seq
  4. biology/p5-TrimGalore
  5. biology/rna-seq

Configuration Options:
No options to configure
Options name:
biology_fastqc
USES:
zip perl5 shebangfix
FreshPorts was unable to extract/find any pkg message
Master Sites:
Expand this list (1 items)
Collapse this list.
  1. https://www.bioinformatics.babraham.ac.uk/projects/fastqc/
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Number of commits found: 8

Commit History - (may be incomplete: for full details, see links to repositories near top of page)
CommitCreditsLog message
0.12.1
05 Mar 2023 00:17:20
commit hash: a5b1448e8eb2d2558dd94d007dba3a7b591b8b73commit hash: a5b1448e8eb2d2558dd94d007dba3a7b591b8b73commit hash: a5b1448e8eb2d2558dd94d007dba3a7b591b8b73commit hash: a5b1448e8eb2d2558dd94d007dba3a7b591b8b73 files touched by this commit
Jason W. Bacon (jwb) search for other commits by this committer
biology/fastqc: Update to 0.12.1

Several feature enhancements and a few bug fixes
Changes: https://github.com/s-andrews/FastQC/releases

Reported by:    portscout
07 Sep 2022 21:58:51
commit hash: fb16dfecae4a6efac9f3a78e0b759fb7a3c53de4commit hash: fb16dfecae4a6efac9f3a78e0b759fb7a3c53de4commit hash: fb16dfecae4a6efac9f3a78e0b759fb7a3c53de4commit hash: fb16dfecae4a6efac9f3a78e0b759fb7a3c53de4 files touched by this commit
Stefan Eßer (se) search for other commits by this committer
Remove WWW entries moved into port Makefiles

Commit b7f05445c00f has added WWW entries to port Makefiles based on
WWW: lines in pkg-descr files.

This commit removes the WWW: lines of moved-over URLs from these
pkg-descr files.

Approved by:		portmgr (tcberner)
0.11.9
07 Sep 2022 21:10:59
commit hash: b7f05445c00f2625aa19b4154ebcbce5ed2daa52commit hash: b7f05445c00f2625aa19b4154ebcbce5ed2daa52commit hash: b7f05445c00f2625aa19b4154ebcbce5ed2daa52commit hash: b7f05445c00f2625aa19b4154ebcbce5ed2daa52 files touched by this commit
Stefan Eßer (se) search for other commits by this committer
Add WWW entries to port Makefiles

It has been common practice to have one or more URLs at the end of the
ports' pkg-descr files, one per line and prefixed with "WWW:". These
URLs should point at a project website or other relevant resources.

Access to these URLs required processing of the pkg-descr files, and
they have often become stale over time. If more than one such URL was
present in a pkg-descr file, only the first one was tarnsfered into
the port INDEX, but for many ports only the last line did contain the
port specific URL to further information.

There have been several proposals to make a project URL available as
a macro in the ports' Makefiles, over time.
(Only the first 15 lines of the commit message are shown above View all of this commit message)
0.11.9
07 Apr 2021 08:09:01
commit hash: cf118ccf875508b9a1c570044c93cfcc82bd455ccommit hash: cf118ccf875508b9a1c570044c93cfcc82bd455ccommit hash: cf118ccf875508b9a1c570044c93cfcc82bd455ccommit hash: cf118ccf875508b9a1c570044c93cfcc82bd455c files touched by this commit
Mathieu Arnold (mat) search for other commits by this committer
One more small cleanup, forgotten yesterday.
Reported by:	lwhsu
0.11.9
06 Apr 2021 14:31:07
commit hash: 305f148f482daf30dcf728039d03d019f88344ebcommit hash: 305f148f482daf30dcf728039d03d019f88344ebcommit hash: 305f148f482daf30dcf728039d03d019f88344ebcommit hash: 305f148f482daf30dcf728039d03d019f88344eb files touched by this commit
Mathieu Arnold (mat) search for other commits by this committer
Remove # $FreeBSD$ from Makefiles.
0.11.9
04 Feb 2021 15:56:33
Revision:564040Original commit files touched by this commit
jwb search for other commits by this committer
biology/fastqc: Update to 0.11.9

Minor bug fixes since 0.11.8
0.11.8
21 Sep 2019 02:44:54
Revision:512461Original commit files touched by this commit
jwb search for other commits by this committer
biology/fastqc: Upgrade to 0.11.8

Minor bug fixes and edge case handling.

Minor Makefile clean up.
0.11.5
30 Nov 2017 22:54:29
Revision:455236Original commit files touched by this commit
jwb search for other commits by this committer
[new port] biology/fastqc: Quality control tool for high throughput sequence
data

Approved by: jrm (mentor)
Differential Revision:  https://reviews.freebsd.org/D13304

Number of commits found: 8