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AgeCommit message (Expand)Author
2020-07-12Remove duplicate counterPjotr Prins
2020-07-12Remove duplicate counterPjotr Prins
2020-07-10metadata with missing host_species are not createdAndreaGuarracino
2020-07-10an output file is created with the accessions for which no YAML file is createdAndreaGuarracino
2020-07-10updated metadata sourceAndreaGuarracino
2020-07-10other term for Homo sapiens (for SRA samples)Andrea Guarracino
2020-07-09Skip certificate check - this was upstreamed in Arvados, so we can remove laterPjotr Prins
2020-07-09Merge pull request #93 from AndreaGuarracino/patch-22Pjotr Prins
2020-07-09fixed bug that lead to invalid sample_sequencing_technology valuesAndrea Guarracino
2020-07-08Adding missing GPS coordinates et alllltommy
2020-07-08Try to fix lab_address wrong predicate, fix submitter shape on the way and ho...lltommy
2020-07-08Merge pull request #92 from arvados/upload-download-statusPeter Amstutz
2020-07-08Give uploader an option to trust local validation (for batch imports)upload-download-statusPeter Amstutz
2020-07-08Uploader checks for duplicatesPeter Amstutz
2020-07-08Avoid redundant loading of schemaPeter Amstutz
2020-07-08Add --revalidate and fix checking/updating properties.Peter Amstutz
2020-07-08Hack in a valid-uri checkPeter Amstutz
2020-07-08Get count from arvadosPeter Amstutz
2020-07-08Fetch status as anonymous userPeter Amstutz
2020-07-08Split upload tab. Add upload status tab.Peter Amstutz
2020-07-08Merge pull request #89 from proccaserra/patch-1LLTommy
2020-07-07Merge branch 'master' of https://github.com/arvados/bh20-seq-resourcelltommy
2020-07-07Adding some more country labels. Some GPS are still missing, will handle in t...lltommy
2020-07-07Adding sequencer labelslltommy
2020-07-07Merge pull request #90 from AndreaGuarracino/patch-21LLTommy
2020-07-07--print-status=html creates html reportPeter Amstutz
2020-07-07fix missing authors #91AndreaGuarracino
2020-07-07minimap2 returns nothing when there is no alignment.Peter Amstutz
2020-07-07if the technology is not found, the YAML file is not created; managed longer ...AndreaGuarracino
2020-07-07Use minimap2 instead of clustalw for fasta QCPeter Amstutz
2020-07-06renamed sra script; added seq technology in its additional information field ...AndreaGuarracino
2020-07-06fix ncbi_countries dictionaryAndreaGuarracino
2020-07-06new terms in the ncbi_countries dictionaryAndrea Guarracino
2020-07-06added seq technology in its additional information field if the term is missi...AndreaGuarracino
2020-07-06updated SraExperimentPackage infoAndreaGuarracino
2020-07-06two more terms in the ncbi_sequencing_technology dictionaryAndrea Guarracino
2020-07-06fixed bugs in the download_sra_dataAndrea Guarracino
2020-07-06new terms in the sequencing_technology dictionaryAndrea Guarracino
2020-07-05Add bh20-seq-analyzer --print-statusPeter Amstutz
2020-07-03A little more loggingPeter Amstutz
2020-07-03Add upload.cwlPeter Amstutz
2020-07-03Add --no-start-analysisPeter Amstutz
2020-07-03Add --skip-qc for faster batch importPeter Amstutz
2020-07-03Adding --skip-qcPeter Amstutz
2020-07-03Fix qc_fasta bug closing stream.Peter Amstutz
2020-07-03Improving genbank import workflowPeter Amstutz
2020-07-03Fix single arg uploadPeter Amstutz
2020-07-03Update form.htmlPhilippe Rocca-Serra
2020-06-25Update labels.ttlLLTommy
2020-06-24Merge pull request #87 from AndreaGuarracino/patch-20LLTommy
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