Merge pull request #91 from dufeiyu/json

Update json with the correct repo path and new dragen-2 queue
genome · Jun 21, 2023 · b76f3fe · b76f3fe
2 parents 8b32607 + a7444d2
commit b76f3fe
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Showing 3 changed files with 6 additions and 5 deletions.
diff --git a/MyeloseqHD.json b/MyeloseqHD.json
@@ -9,9 +9,10 @@
     "MyeloseqHD.MinReads":5,
     "MyeloseqHD.MinVaf":0.02,
     "MyeloseqHD.VariantDB":"/storage1/fs1/gtac-mgi/Active/CLE/validation/cle_validation/CLE_variant_database/myeloseqhd/myeloseqhd_variants.sqlite",
-    "MyeloseqHD.MyeloSeqHDRepo":"/storage1/fs1/dspencer/Active/spencerlab/dhs/git/cle-myeloseqhd-2",
-    "MyeloseqHD.DragenDockerImage":"docker1(seqfu/centos7-dragen-4.0.3:latest)",
-    "MyeloseqHD.DragenQueue":"duncavagee",
+    "MyeloseqHD.MyeloSeqHDRepo":"/storage1/fs1/duncavagee/Active/SEQ/MyeloSeqHD/process/git/cle-myeloseqhd",
+    "MyeloseqHD.DragenEnv":"LSF_DOCKER_DRAGEN=y",
+    "MyeloseqHD.DragenDockerImage":"gtac-mgi-dragen(seqfu/oracle8-dragen-4.0.3:latest)",
+    "MyeloseqHD.DragenQueue":"dragen-2",
     "MyeloseqHD.Queue":"dspencer",
     "MyeloseqHD.JobGroup":"/cle/wdl/haloplex"
 }
diff --git a/MyeloseqHDAnalysis.json b/MyeloseqHDAnalysis.json
@@ -16,7 +16,7 @@
     "MyeloseqHDAnalysis.refFasta":"/storage1/fs1/duncavagee/Active/SEQ/Chromoseq/process/refdata/hg38/all_sequences.fa",
     "MyeloseqHDAnalysis.ReferenceDict":"/storage1/fs1/duncavagee/Active/SEQ/Chromoseq/process/refdata/hg38/all_sequences.dict",
     "MyeloseqHDAnalysis.Vepcache":"/storage1/fs1/gtac-mgi/Active/CLE/reference/VEP_cache", 
-    "MyeloseqHDAnalysis.MyeloSeqHDRepo":"/storage1/fs1/dspencer/Active/spencerlab/dhs/git/cle-myeloseqhd-2",
+    "MyeloseqHDAnalysis.MyeloSeqHDRepo":"/storage1/fs1/duncavagee/Active/SEQ/MyeloSeqHD/process/git/cle-myeloseqhd",
     "MyeloseqHDAnalysis.VariantDB":"/storage1/fs1/gtac-mgi/Active/CLE/validation/cle_validation/CLE_variant_database/myeloseqhd/myeloseqhd_variants.sqlite",
     "MyeloseqHDAnalysis.MinReads":5,
     "MyeloseqHDAnalysis.MinVaf":0.02,

diff --git a/MyeloseqHD_alt.json b/MyeloseqHD_alt.json
@@ -9,7 +9,7 @@
     "MyeloseqHD.MinReads":5,
     "MyeloseqHD.MinVaf":0.02,
     "MyeloseqHD.VariantDB":"/storage1/fs1/gtac-mgi/Active/CLE/validation/cle_validation/CLE_variant_database/myeloseqhd/myeloseqhd_variants.sqlite",
-    "MyeloseqHD.MyeloSeqHDRepo":"/storage1/fs1/dspencer/Active/spencerlab/dhs/git/cle-myeloseqhd-2",
+    "MyeloseqHD.MyeloSeqHDRepo":"/storage1/fs1/duncavagee/Active/SEQ/MyeloSeqHD/process/git/cle-myeloseqhd",
     "MyeloseqHD.DragenEnv":"LSF_DOCKER_DRAGEN=y",
     "MyeloseqHD.DragenDockerImage":"gtac-mgi-dragen(seqfu/oracle8-dragen-4.0.3:latest)",
     "MyeloseqHD.DragenQueue":"dragen",