Update import.smk

khanlab · Sep 6, 2024 · 6fa5405 · 6fa5405
1 parent 88fb25d
commit 6fa5405
Showing 1 changed file with 0 additions and 37 deletions.
diff --git a/workflow/rules/import.smk b/workflow/rules/import.smk
@@ -294,40 +294,3 @@ rule tif_to_zarr_gcs:
         config["containers"]["spimprep"]
     script:
         "../scripts/tif_to_zarr_gcs.py"
-
-
-rule save_imported_zarr:
-    """will be run if save_work=True"""
-    input:
-        zarr=lambda wildcards: bids(
-            root=work,
-            subject="{subject}",
-            datatype="micr",
-            sample="{sample}",
-            acq="{acq}",
-            desc="rawfromgcs" if dataset_is_remote(wildcards) else "raw",
-            suffix="SPIM.zarr",
-        ).format(**wildcards),
-    output:
-        zarr=bids(
-            root="bids/work",
-            subject="{subject}",
-            datatype="micr",
-            sample="{sample}",
-            acq="{acq}",
-            desc="raw",
-            suffix="SPIM.zarr",
-        ),
-    log:
-        bids(
-            root="logs",
-            datatype="save_imported_zarr",
-            subject="{subject}",
-            sample="{sample}",
-            acq="{acq}",
-            suffix="log.txt",
-        ),
-    group:
-        "preproc"
-    shell:
-        "cp -Rv {input} {output}"