Bug fixes and time limits for vis

TheJacksonLaboratory · Mar 18, 2022 · 2fa2933 · 2fa2933
1 parent 23196d1
commit 2fa2933
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Showing 3 changed files with 6 additions and 2 deletions.
diff --git a/bin/check_samplesheet.py b/bin/check_samplesheet.py
@@ -222,7 +222,7 @@ def __init__(self):
 
     def additional_checks(self, record_id, record):
         # assert we have both library types
-        has_both_lib_types = len(set(record.library_types)) == 2
+        has_both_lib_types = len(set(record["library_types"])) == 2
         if not has_both_lib_types:
             print_error(
                 f"Record {record_id} needs to have both library types: {self.allowed_library_types}"

diff --git a/modules/spaceranger.nf b/modules/spaceranger.nf
@@ -42,6 +42,10 @@ process SPACERANGER_COUNT {
     tag "$record.output_id"
     label "tenx_genomics_count"
 
+    // cpus determined by profile
+    // memory determined by profile
+    time { (record.n_reads / 300000000).round(2) * 8.hour * params.time_scale_factor }
+
     container "library://singlecell/${record.tool}:${record.tool_version}"
 
     input:

diff --git a/nextflow.config b/nextflow.config
@@ -16,5 +16,5 @@ manifest {
     homePage = "https://github.com/TheJacksonLaboratory/nf-tenx"
     mainScript = "main.nf"
     nextflowVersion = "!>=20.10.0"
-    version = "0.5.0"
+    version = "0.5.1"
 }