Snakefmt

zjnolen · Mar 15, 2024 · 5f181c8 · 5f181c8
1 parent 802bdea
commit 5f181c8
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Showing 3 changed files with 15 additions and 5 deletions.
diff --git a/workflow/rules/0.2_ref_filt.smk b/workflow/rules/0.2_ref_filt.smk
@@ -228,7 +228,9 @@ rule genmap_filt_bed:
         gensum="results/ref/{ref}/beds/genome.bed.sum",
     output:
         bed="results/datasets/{dataset}/filters/pileupmap/{ref}_k{k}_e{e}_{thresh}.bed",
-        tmp=temp("results/datasets/{dataset}/filters/pileupmap/{ref}_k{k}_e{e}_{thresh}.bed.tmp"),
+        tmp=temp(
+            "results/datasets/{dataset}/filters/pileupmap/{ref}_k{k}_e{e}_{thresh}.bed.tmp"
+        ),
         sum="results/datasets/{dataset}/filters/pileupmap/{ref}_k{k}_e{e}_{thresh}.bed.sum",
     log:
         "logs/{dataset}/filters/pileupmap/{ref}_k{k}_e{e}_{thresh}.log",

diff --git a/workflow/rules/7.1_thetas.smk b/workflow/rules/7.1_thetas.smk
@@ -14,8 +14,12 @@ rule realSFS_saf2theta:
         ),
         sfs="results/datasets/{dataset}/analyses/sfs/{dataset}.{ref}_{population}{dp}_{sites}-filts.sfs",
     output:
-        thetasidx=temp("results/datasets/{dataset}/analyses/thetas/{dataset}.{ref}_{population}{dp}_{sites}-filts.thetas.idx"),
-        thetas=temp("results/datasets/{dataset}/analyses/thetas/{dataset}.{ref}_{population}{dp}_{sites}-filts.thetas.gz"),
+        thetasidx=temp(
+            "results/datasets/{dataset}/analyses/thetas/{dataset}.{ref}_{population}{dp}_{sites}-filts.thetas.idx"
+        ),
+        thetas=temp(
+            "results/datasets/{dataset}/analyses/thetas/{dataset}.{ref}_{population}{dp}_{sites}-filts.thetas.gz"
+        ),
     container:
         angsd_container
     log:

diff --git a/workflow/rules/7.2_fst.smk b/workflow/rules/7.2_fst.smk
@@ -20,8 +20,12 @@ rule realSFS_fst_index:
         ),
         sfs="results/datasets/{dataset}/analyses/sfs/{dataset}.{ref}_{population1}-{population2}{dp}_{sites}-filts.sfs",
     output:
-        fstidx=temp("results/datasets/{dataset}/analyses/fst/{dataset}.{ref}_{population1}-{population2}{dp}_{sites}-filts.fst.idx"),
-        fstgz=temp("results/datasets/{dataset}/analyses/fst/{dataset}.{ref}_{population1}-{population2}{dp}_{sites}-filts.fst.gz"),
+        fstidx=temp(
+            "results/datasets/{dataset}/analyses/fst/{dataset}.{ref}_{population1}-{population2}{dp}_{sites}-filts.fst.idx"
+        ),
+        fstgz=temp(
+            "results/datasets/{dataset}/analyses/fst/{dataset}.{ref}_{population1}-{population2}{dp}_{sites}-filts.fst.gz"
+        ),
     container:
         angsd_container
     log: