diff options
| -rw-r--r-- | bh20seqanalyzer/main.py | 2 | ||||
| -rw-r--r-- | bh20simplewebuploader/templates/resource.html | 4 | ||||
| -rwxr-xr-x | workflows/update-workflows.sh | 2 |
3 files changed, 4 insertions, 4 deletions
diff --git a/bh20seqanalyzer/main.py b/bh20seqanalyzer/main.py index 5f00080..0906958 100644 --- a/bh20seqanalyzer/main.py +++ b/bh20seqanalyzer/main.py @@ -215,7 +215,7 @@ class SeqAnalyzer: most_recent_analysis = self.api.groups().list(filters=[['owner_uuid', '=', self.pangenome_analysis_project]], order="created_at desc").execute() for m in most_recent_analysis["items"]: - wf = self.get_workflow_output_from_project(m["uuid"], "arv-main.cwl") + wf = self.get_workflow_output_from_project(m["uuid"], "collect-seqs.cwl") if wf is None: continue src = self.api.collections().get(uuid=wf["output_uuid"]).execute() diff --git a/bh20simplewebuploader/templates/resource.html b/bh20simplewebuploader/templates/resource.html index fc52f13..4c50fb9 100644 --- a/bh20simplewebuploader/templates/resource.html +++ b/bh20simplewebuploader/templates/resource.html @@ -10,8 +10,8 @@ <p><a href="https://workbench.lugli.arvadosapi.com/projects/lugli-j7d0g-5ct8p1i1wrgyjvp#Data_collections">All sequences project</a></p> <p><a href="https://workbench.lugli.arvadosapi.com/collections/lugli-4zz18-z513nlpqm03hpca/relabeledSeqs.sorted_by_quality_and_len.fasta">All sequences (FASTA) relabled and deduplicated</a></p> <p><a href="https://workbench.lugli.arvadosapi.com/collections/lugli-4zz18-z513nlpqm03hpca/mergedmetadata.ttl">Metadata (RDF) for all sequences</a></p> - <p><a href="https://workbench.lugli.arvadosapi.com/collections/lugli-4zz18-z513nlpqm03hpca/relabeledSeqs.sorted_by_quality_and_len.g6.gfa">All sequences in Graphical Fragment Assembly (GFA)</a> - <a href="https://github.com/GFA-spec/GFA-spec">More about GFA</a></p> - <p><a href="https://workbench.lugli.arvadosapi.com/collections/lugli-4zz18-z513nlpqm03hpca/relabeledSeqs.sorted_by_quality_and_len.g6.unchop.sorted.odgi">All sequences in Optimized Dynamic Genome/Graph Implementation (ODGI)</a> - <a href="https://github.com/vgteam/odgi">More about ODGI</a></p> + <!-- <p><a href="https://workbench.lugli.arvadosapi.com/collections/lugli-4zz18-z513nlpqm03hpca/relabeledSeqs.sorted_by_quality_and_len.g6.gfa">All sequences in Graphical Fragment Assembly (GFA)</a> - <a href="https://github.com/GFA-spec/GFA-spec">More about GFA</a></p> --> + <!-- <p><a href="https://workbench.lugli.arvadosapi.com/collections/lugli-4zz18-z513nlpqm03hpca/relabeledSeqs.sorted_by_quality_and_len.g6.unchop.sorted.odgi">All sequences in Optimized Dynamic Genome/Graph Implementation (ODGI)</a> - <a href="https://github.com/vgteam/odgi">More about ODGI</a></p> --> <!-- <p><a href="https://workbench.lugli.arvadosapi.com/collections/lugli-4zz18-z513nlpqm03hpca/relabeledSeqs_dedup_relabeledSeqs_dedup.ttl.xz">All sequences in RDF using spodgi</a> - <a href="https://github.com/pangenome/spodgi">More about spodgi</a></p> --> diff --git a/workflows/update-workflows.sh b/workflows/update-workflows.sh index 3b69a58..5182ec4 100755 --- a/workflows/update-workflows.sh +++ b/workflows/update-workflows.sh @@ -1,3 +1,3 @@ #!/bin/sh arvados-cwl-runner --project-uuid=lugli-j7d0g-5hswinmpyho8dju --update-workflow=lugli-7fd4e-2zp9q4jo5xpif9y fastq2fasta/fastq2fasta.cwl -arvados-cwl-runner --project-uuid=lugli-j7d0g-5hswinmpyho8dju --update-workflow=lugli-7fd4e-mqfu9y3ofnpnho1 pangenome-generate/arv-main.cwl +arvados-cwl-runner --project-uuid=lugli-j7d0g-5hswinmpyho8dju --update-workflow=lugli-7fd4e-mqfu9y3ofnpnho1 pangenome-generate/collect-seqs.cwl |