System tests on Linux

Workflow runs for System tests on Linux

• Merge pull request #147 from smithlabcode/fix-iupac-issue-for-orig-dups

  completed successfully:
  System tests on Linux#160:Commitf20c35cpushedbyandrewdavidsmith
  main

  Nov 10, 20261m 23s
  More actions for workflow run 160

• IUPAC symbols for orig-dups mode: non-ACGT (case insensitive) are converted to N

  completed successfully:
  System tests on Linux#159:Pull request#147synchronizebyandrewdavidsmith
  fix-iupac-issue-for-orig-dups

  Nov 10, 20261m 17s
  More actions for workflow run 159

• IUPAC symbols for orig-dups mode: non-ACGT (case insensitive) are converted to N

  failed:
  System tests on Linux#158:Pull request#147synchronizebyandrewdavidsmith
  fix-iupac-issue-for-orig-dups

  Nov 10, 20261m 19s
  More actions for workflow run 158

• IUPAC symbols for orig-dups mode: non-ACGT (case insensitive) are converted to N

  completed successfully:
  System tests on Linux#157:Pull request#147synchronizebyandrewdavidsmith
  fix-iupac-issue-for-orig-dups

  Nov 9, 20261m 23s
  More actions for workflow run 157

• update comments

  completed successfully:
  System tests on Linux#156:Commite34c187pushedbyandrewdavidsmith
  main

  Nov 9, 20261m 17s
  More actions for workflow run 156

• Grade adapter, overrepresented, N content and duplication as FastQC

  failed:
  System tests on Linux#155:Pull request#146synchronizebyMaximilianStammnitz
  MaximilianStammnitz:fix-grading-units

  Nov 9, 20266m 22s
  More actions for workflow run 155

• Grade adapter, overrepresented, N content and duplication as FastQC

  failed:
  System tests on Linux#154:Pull request#146synchronizebyMaximilianStammnitz
  MaximilianStammnitz:fix-grading-units

  Nov 9, 20269h 45m 27s
  More actions for workflow run 154

• IUPAC symbols for orig-dups mode: non-ACGT (case insensitive) are converted to N

  completed successfully:
  System tests on Linux#153:Pull request#147openedbyandrewdavidsmith
  fix-iupac-issue-for-orig-dups

  Nov 5, 20261m 20s
  More actions for workflow run 153

• Grade adapter, overrepresented, N content and duplication as FastQC

  failed:
  System tests on Linux#152:Pull request#146openedbyMaximilianStammnitz
  MaximilianStammnitz:fix-grading-units

  Nov 2, 20267d 8h 38m 32s
  More actions for workflow run 152

• src/fastq_bgzf_file.cpp: fixing macos compiler complaint about type w…

  completed successfully:
  System tests on Linux#151:Commit99197e7pushedbyandrewdavidsmith
  main

  Oct 28, 20261m 36s
  More actions for workflow run 151

• Fixing bug in decompressing some BGZF files and reporting actual buffer sizes in verbose output

  completed successfully:
  System tests on Linux#150:Pull request#143synchronizebyandrewdavidsmith
  fix-bgzf-crash

  Oct 28, 20261m 24s
  More actions for workflow run 150

• Fixing bug in decompressing some BGZF files and reporting actual buffer sizes in verbose output

  completed successfully:
  System tests on Linux#149:Pull request#143openedbyandrewdavidsmith
  fix-bgzf-crash

  Oct 28, 20261m 21s
  More actions for workflow run 149

• src/fastq_file.cpp: apparently fcntl.h is needed on systems besides m…

  completed successfully:
  System tests on Linux#148:Commit2caf316pushedbyandrewdavidsmith
  main

  Oct 28, 20261m 13s
  More actions for workflow run 148

• Adding robustness to IUPAC degenerate nucleotides in reads

  completed successfully:
  System tests on Linux#147:Pull request#142openedbyandrewdavidsmith
  robustness-to-iupac-degen

  Oct 28, 20261m 18s
  More actions for workflow run 147

• System tests on Linux

  completed successfully:
  System tests on Linux#146:Manually runbyandrewdavidsmith
  robustness-to-iupac-degen

  Oct 28, 20261m 11s
  More actions for workflow run 146

• data/test_data/md5sum.txt: adding test hash for original gc content test

  completed successfully:
  System tests on Linux#144:Commit54af0b2pushedbyandrewdavidsmith
  main

  Oct 12, 20261m 12s
  More actions for workflow run 144

• Mode to output GC content using original FastQC smoothing

  completed successfully:
  System tests on Linux#143:Pull request#140openedbyandrewdavidsmith
  gc-content-grade

  Oct 12, 20261m 1s
  More actions for workflow run 143

• src/falco_analyzer.cpp: catching exceptions within threads for easier…

  completed successfully:
  System tests on Linux#142:Commitf464284pushedbyandrewdavidsmith
  main

  Oct 7, 20261m 19s
  More actions for workflow run 142

• Catching exceptions within threads for easier debugging

  completed successfully:
  System tests on Linux#141:Pull request#139openedbyandrewdavidsmith
  exceptions-from-threads

  Oct 7, 20261m 12s
  More actions for workflow run 141

• reads files: changing type for min_chunk_size because of compiler pro…

  completed successfully:
  System tests on Linux#140:Commit046572cpushedbyandrewdavidsmith
  main

  Oct 6, 20261m 38s
  More actions for workflow run 140

• Falco accepts BAM/SAM files without quality scores and stability added for small inputs

  completed successfully:
  System tests on Linux#139:Pull request#138openedbyandrewdavidsmith
  quals-optional

  Oct 6, 20261m 19s
  More actions for workflow run 139

• src/bgzf_reader.hcpp: moving the gzip file header struct into the sou…

  completed successfully:
  System tests on Linux#138:Commitc85e331pushedbyandrewdavidsmith
  main

  Oct 1, 20261m 16s
  More actions for workflow run 138

• Fixing potentially dangerous memcpy and cleaning up includes and clang-tidy checks

  completed successfully:
  System tests on Linux#137:Pull request#137synchronizebyandrewdavidsmith
  fix-includes2

  Oct 1, 20262m 52s
  More actions for workflow run 137

• Fixing potentially dangerous memcpy and cleaning up includes and clang-tidy checks

  completed successfully:
  System tests on Linux#136:Pull request#137openedbyandrewdavidsmith
  fix-includes2

  Oct 1, 20262m 33s
  More actions for workflow run 136

• Fixing potentially dangerous memcpy and cleaning up includes and clang-tidy checks

  completed successfully:
  System tests on Linux#135:Pull request#136openedbyandrewdavidsmith
  fixed-includes

  Oct 1, 20261m 26s
  More actions for workflow run 135