make merged files temp

pdimens · Aug 5, 2024 · d738f82 · d738f82
1 parent 4394b9f
commit d738f82
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Showing 3 changed files with 6 additions and 6 deletions.
diff --git a/src/harpy/snakefiles/sv_leviathan_pop.smk b/src/harpy/snakefiles/sv_leviathan_pop.smk
@@ -110,8 +110,8 @@ rule sort_merged:
     input:
         outdir + "/workflow/input/{population}.unsort.bam"
     output:
-        bam = outdir + "/workflow/input/{population}.bam",
-        bai = outdir + "/workflow/input/{population}.bam.bai"
+        bam = temp(outdir + "/workflow/input/{population}.bam"),
+        bai = temp(outdir + "/workflow/input/{population}.bam.bai")
     log:
         outdir + "/logs/{population}.sort.log"
     resources:

diff --git a/src/harpy/snakefiles/sv_naibr_pop.smk b/src/harpy/snakefiles/sv_naibr_pop.smk
@@ -126,8 +126,8 @@ rule sort_merged:
     input:
         outdir + "/workflow/input/{population}.unsort.bam"
     output:
-        bam = outdir + "/workflow/input/{population}.bam",
-        bai = outdir + "/workflow/input/{population}.bam.bai"
+        bam = (outdir + "/workflow/input/{population}.bam"),
+        bai = (outdir + "/workflow/input/{population}.bam.bai")
     log:
         outdir + "/logs/{population}.sort.log"
     resources:

diff --git a/src/harpy/snakefiles/sv_naibr_pop_phase.smk b/src/harpy/snakefiles/sv_naibr_pop_phase.smk
@@ -253,8 +253,8 @@ rule sort_merged:
     input:
         outdir + "/workflow/input/concat/{population}.unsort.bam"
     output:
-        bam = outdir + "/workflow/input/{population}.bam",
-        bai = outdir + "/workflow/input/{population}.bam.bai"
+        bam = temp(outdir + "/workflow/input/{population}.bam"),
+        bai = temp(outdir + "/workflow/input/{population}.bam.bai")
     log:
         outdir + "/logs/{population}.sort.log"
     resources: