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-rw-r--r--bh20seqanalyzer/main.py2
-rw-r--r--bh20simplewebuploader/templates/resource.html4
-rwxr-xr-xworkflows/update-workflows.sh2
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