geoseeq 0.6.14.dev4__tar.gz → 0.6.14.dev5__tar.gz

{geoseeq-0.6.14.dev4 → geoseeq-0.6.14.dev5}/PKG-INFO

@@ -1,6 +1,6 @@
 Metadata-Version: 2.2
 Name: geoseeq
-Version: 0.6.14.dev4
+Version: 0.6.14.dev5
 Summary: GeoSeeq command line tools and python API
 Author: David C. Danko
 Author-email: "David C. Danko" <dcdanko@biotia.io>

{geoseeq-0.6.14.dev4 → geoseeq-0.6.14.dev5}/geoseeq/cli/download.py

@@ -379,10 +379,10 @@ def cli_download_ids(state, cores, target_dir, file_name, yes, download, head, i
 
 
 def _get_sample_result_files_with_names(sample, module_name=None, first=False):
+    result_files_with_names = []
     for read_type, folder in sample.get_all_fastqs().items():
         if module_name and module_name != read_type:
             continue
-        result_files_with_names = []
         for folder_name, result_files in folder.items():
             for lane_num, result_file in enumerate(result_files):
                 lane_num = lane_num + 1  # 1 indexed

{geoseeq-0.6.14.dev4 → geoseeq-0.6.14.dev5}/geoseeq/cli/main.py

@@ -55,7 +55,7 @@ def version():
     Use of this tool implies acceptance of the GeoSeeq End User License Agreement.
     Run `geoseeq eula show` to view the EULA.
     """
-    click.echo('0.6.14dev4')  # remember to update pyproject.toml
+    click.echo('0.6.14dev5')  # remember to update pyproject.toml
 
 
 @main.group('advanced')

{geoseeq-0.6.14.dev4 → geoseeq-0.6.14.dev5}/geoseeq/result/file_download.py

@@ -107,7 +107,9 @@ def download_url(url, kind='guess', filename=None, head=None, progress_tracker=N
     elif kind == 'ftp':
         return download_ftp(url, filename, head=head)
     elif kind == 'http':
-        # for http[s] files we care about head is often respected in practice (e.g. by the ENA) 
+        # for http[s] files we care about head is often respected in practice (e.g. by the ENA)
+        if not url.startswith("http"):
+            url = "https://" + url
         return _download_head(url, filename, head=head, progress_tracker=progress_tracker)
     else:
         raise ValueError(f"Unknown download kind: {kind}")
@@ -179,7 +181,7 @@ class ResultFileDownload:
 
         url = self.get_download_url()
         filepath = download_url(
-            url, blob_type, filename,
+            url, kind=blob_type, filename=filename,
             head=head, progress_tracker=progress_tracker,
         )
         if cache and flag_suffix:

{geoseeq-0.6.14.dev4 → geoseeq-0.6.14.dev5}/geoseeq.egg-info/PKG-INFO

@@ -1,6 +1,6 @@
 Metadata-Version: 2.2
 Name: geoseeq
-Version: 0.6.14.dev4
+Version: 0.6.14.dev5
 Summary: GeoSeeq command line tools and python API
 Author: David C. Danko
 Author-email: "David C. Danko" <dcdanko@biotia.io>

{geoseeq-0.6.14.dev4 → geoseeq-0.6.14.dev5}/pyproject.toml

@@ -4,7 +4,7 @@ build-backend = "setuptools.build_meta"
 
 [project]
 name = "geoseeq"
-version = "0.6.14dev4"
+version = "0.6.14dev5"
 authors = [
   { name="David C. Danko", email="dcdanko@biotia.io" },
 ]