remove short flag

Sage-Bionetworks · Oct 29, 2024 · c3be46c · c3be46c
1 parent e500fe6
commit c3be46c
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Showing 2 changed files with 3 additions and 3 deletions.
diff --git a/modules/merge_and_uncode_rca_uploads.nf b/modules/merge_and_uncode_rca_uploads.nf
@@ -20,13 +20,13 @@ process merge_and_uncode_rca_uploads {
    if (production) {
       """
       cd /usr/local/src/myscripts/
-      Rscript merge_and_uncode_rca_uploads.R -c $cohort -v --production --save_synapse -cmt $comment
+      Rscript merge_and_uncode_rca_uploads.R -c $cohort -v --production --save_synapse --comment $comment
       """
    }
    else {
       """
       cd /usr/local/src/myscripts/
-      Rscript merge_and_uncode_rca_uploads.R -c $cohort -v --save_synapse -cmt $comment
+      Rscript merge_and_uncode_rca_uploads.R -c $cohort -v --save_synapse --comment $comment
       """
    }
 }
diff --git a/scripts/uploads/merge_and_uncode_rca_uploads.R b/scripts/uploads/merge_and_uncode_rca_uploads.R
@@ -705,7 +705,7 @@ main <- function(){
                 help="Whether to run in production mode or not (staging mode)."),
     make_option(c("-v", "--verbose"), action="store_true", default = FALSE, 
                 help="Print out verbose output on script progress"),
-    make_option(c("-cmt", "--comment"), type = "character",
+    make_option(c("--comment"), type = "character",
               help="Comment for new table snapshot version. This must be unique and is tied to the cohort run.")
   )
   opt <- parse_args(OptionParser(option_list=option_list))