try defining BIOMART_CACHE for mageck flute

nf-core · Oct 29, 2024 · c6f5c19 · c6f5c19
1 parent 1ea9a93
commit c6f5c19
Showing 1 changed file with 2 additions and 1 deletion.
diff --git a/templates/template_fluteMLE.R b/templates/template_fluteMLE.R
@@ -7,10 +7,11 @@
     # Required to fix corrupted cache from Singularity container
     library(BiocFileCache)
     bfc <- BiocFileCache("~/.cache/R/ExperimentHub")
+    library(ExperimentHub)
     res <- bfcquery(bfc, "experimenthub.index.rds", field="rname", exact=TRUE)
     bfcremove(bfc, rids=res\$rid)
-    library(ExperimentHub)
     eh = ExperimentHub()
+    Sys.setenv(BIOMART_CACHE=tempdir())
 
     library(MAGeCKFlute)
     library(clusterProfiler)