updating key

Signed-off-by: vsoch <vsochat@stanford.edu>

.dockerignore

@@ -1,3 +1,5 @@
+env
+.env
 .eggs
 images
 misc

snakemake/executors/google_lifesciences.py

@@ -709,7 +709,7 @@ def _generate_job_action(self, job):
         commands = [
             "/bin/bash",
             "-c",
-            "mkdir -p /workdir && cd /workdir && wget -O /download.py https://gist.githubusercontent.com/vsoch/f5a6a6d1894be1e67aa4156c5b40c8e9/raw/a4e9ddbeba20996ca62745fcd4d9ecd7bfa3b311/gls.py && chmod +x /download.py && source activate snakemake || true && python /download.py download %s %s /tmp/workdir.tar.gz && tar -xzvf /tmp/workdir.tar.gz && %s"
+            "mkdir -p /workdir && cd /workdir && wget -O /download.py https://raw.githubusercontent.com/snakemake/snakemake/master/snakemake/executors/google_lifesciences_helper.py && chmod +x /download.py && source activate snakemake || true && python /download.py download %s %s /tmp/workdir.tar.gz && tar -xzvf /tmp/workdir.tar.gz && %s"
             % (self.bucket.name, self.pipeline_package, exec_job),
         ]
 

snakemake/remote/GS.py

@@ -280,7 +280,7 @@ def bucket_name(self):
     def key(self):
         key = self.parse().group("key")
         f = self.local_file()
-        if os.path.exists(f) and os.path.isdir(f):
+        if snakemake.io.is_flagged(f, "directory"):
             key = key if f.endswith("/") else key + "/"
         return key