bh20-seq-resource/workflows, branch yamlfa2ttl Tool to upload SARS-CoV-2 sequences to BH20 Arvados instance and orchestrate analysis http://git.systemreboot.net/bh20-seq-resource/atom?h=yamlfa2ttl 2021-01-08T22:44:47+00:00 sample_id in the FASTA has to match the sample_id in the YAML 2021-01-08T22:44:47+00:00 AndreaGuarracino 2021-01-08T22:44:47+00:00 urn:sha1:53a47a18a45270c3f037fabe9cc973c66bfe50bf added check_metadata workflow and script 2021-01-07T23:25:55+00:00 AndreaGuarracino 2021-01-07T23:25:55+00:00 urn:sha1:2ddf72a4028475eb65dfeab153f3565e698d5338 Merge branch 'master' into yamlfa2ttl 2021-01-07T22:50:01+00:00 AndreaGuarracino 2021-01-07T22:50:01+00:00 urn:sha1:4d841d279b2bf73da2ba815d53863c7f2861c956 added check_sequence workflow and script 2021-01-07T22:02:54+00:00 AndreaGuarracino 2021-01-07T22:02:54+00:00 urn:sha1:141e619929cee17018417d71111063015e73c366 Allow for xml and xml.gz files 2021-01-07T09:17:59+00:00 Pjotr Prins 2021-01-07T09:17:47+00:00 urn:sha1:329a1a7e122eda41016185d1b1e8d50d97f8857b cleaned utils.py 2021-01-06T13:13:13+00:00 AndreaGuarracino 2021-01-06T13:13:13+00:00 urn:sha1:27a2b926036211469eccbf8c3d9580182482bdc2 avoided using resource_stream, now check_format.py works in CWL 2021-01-06T13:09:59+00:00 AndreaGuarracino 2021-01-06T13:09:59+00:00 urn:sha1:430090a65786b0b9dde9e1319a740f95579d0275 Pubseq fetch: sometimes a request times out. So repeat with intervals. 2021-01-06T08:34:14+00:00 Pjotr Prins 2021-01-06T08:33:35+00:00 urn:sha1:c31835f787f3ae36e26bad0a1803f8557f8084e7 cleaning update-from-genbank.py; removed unused import from genbank-fetch-ids.py 2021-01-05T16:56:19+00:00 AndreaGuarracino 2021-01-05T16:56:19+00:00 urn:sha1:911ba372cfc4b35c5b52d18a573a636ea78d16d7 cleaning genbank-fetch-ids.py 2021-01-05T16:35:46+00:00 AndreaGuarracino 2021-01-05T16:35:46+00:00 urn:sha1:f7666a7766c8138aa690340fc68cb67f709327f3