geoseeq 0.6.2__py3-none-any.whl → 0.6.3__py3-none-any.whl

geoseeq/cli/download.py

@@ -160,8 +160,8 @@ def cli_download_files(
 
     \b
     # Download assembly contigs from two samples in the MetaSUB Consortium CSD16 project
-    $ geoseeq download files "MetaSUB Consortium/CSD16" `# specify the project` \ 
-        haib17CEM4890_H2NYMCCXY_SL254769 haib17CEM4890_H2NYMCCXY_SL254773 `# specify the samples by name` \ 
+    $ geoseeq download files "MetaSUB Consortium/CSD16" `# specify the project` \\ 
+        haib17CEM4890_H2NYMCCXY_SL254769 haib17CEM4890_H2NYMCCXY_SL254773 `# specify the samples by name` \\ 
         --folder-type sample --extension '.contigs.fasta' # filter for contig files
 
     ---

geoseeq/cli/main.py

@@ -26,7 +26,7 @@ handler.setFormatter(logging.Formatter('[%(levelname)s] %(name)s :: %(message)s'
 logger.addHandler(handler)
 
 
-@click.group()
+@click.group(context_settings={'show_default': True})
 def main():
     """Command line interface for the GeoSeeq API.
     
@@ -54,7 +54,7 @@ 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('0.6.2')  # remember to update setup
+    click.echo('0.6.3')  # remember to update setup
 
 
 @main.group('advanced')

geoseeq/result/file_download.py

@@ -6,6 +6,7 @@ import os
 from os.path import basename, getsize, join, isfile, getmtime, dirname
 from pathlib import Path
 from tempfile import NamedTemporaryFile
+from math import ceil
 
 from geoseeq.utils import download_ftp
 from geoseeq.constants import FIVE_MB
@@ -43,7 +44,7 @@ def _download_resumable(response, filename, total_size_in_bytes, progress_tracke
     target_id = url_to_id(response.url)
     tracker = ResumableDownloadTracker(chunk_size, target_id, filename)
     if not tracker.download_started: tracker.start_download(response.url)
-    n_chunks = total_size_in_bytes // chunk_size
+    n_chunks = ceil(total_size_in_bytes / chunk_size)
     for i in range(n_chunks):
         bytes_start, bytes_end = i * chunk_size, min((i + 1) * chunk_size - 1, total_size_in_bytes - 1)
         if tracker.part_has_been_downloaded(i):

{geoseeq-0.6.2.dist-info → geoseeq-0.6.3.dist-info}/METADATA

@@ -1,6 +1,6 @@
 Metadata-Version: 2.1
 Name: geoseeq
-Version: 0.6.2
+Version: 0.6.3
 Summary: GeoSeeq command line tools and python API
 Author: David C. Danko
 Author-email: "David C. Danko" <dcdanko@biotia.io>
@@ -12,6 +12,11 @@ Classifier: Operating System :: OS Independent
 Requires-Python: >=3.8
 Description-Content-Type: text/markdown
 License-File: LICENSE
+Requires-Dist: requests
+Requires-Dist: click
+Requires-Dist: pandas
+Requires-Dist: biopython
+Requires-Dist: tqdm
 
 # Geoseeq API Client
 

{geoseeq-0.6.2.dist-info → geoseeq-0.6.3.dist-info}/RECORD

@@ -19,10 +19,10 @@ geoseeq/cli/__init__.py,sha256=4WnK87K5seRK3SGJAxNWnQTqyg5uBhdhrOrzB1D4b3M,24
 geoseeq/cli/constants.py,sha256=Do5AUf9lMO9_P8KpFJ3XwwFBAWsxSjZ6sx9_QEGyC_c,176
 geoseeq/cli/copy.py,sha256=02U9kdrAIbbM8MlRMLL6p-LMYFSuRObE3h5jyvcL__M,2275
 geoseeq/cli/detail.py,sha256=q8Suu-j2k18knfSVFG-SWWGNsKM-n8y9RMA3LcIIi9Y,4132
-geoseeq/cli/download.py,sha256=N_Wrg9d1kY9eJ6C1l0xc_YFjiri8gkXBo9JiuHx9xxE,17766
+geoseeq/cli/download.py,sha256=QTNA7qFjCdRJg2vKbAm5yH8WGlcF5fb5bSjm5QiI4XE,17768
 geoseeq/cli/fastq_utils.py,sha256=-bmeQLaiMBm57zWOF0R5OlWTU0_3sh1JBC1RYw2BOFM,3083
 geoseeq/cli/get_eula.py,sha256=79mbUwyiF7O1r0g6UTxG9kJGQEqKuH805E6eLkPC6Y4,997
-geoseeq/cli/main.py,sha256=y6OK6ryYf7TyMtufl0kGESro5Fy5Hu7_xzIc3aYDKCo,3791
+geoseeq/cli/main.py,sha256=9yQRXR8Bs304a0m0eVFnrtmTClChED9S9C3ns2I0szA,3830
 geoseeq/cli/manage.py,sha256=wGXAcVaXqE5JQEU8Jh6OlHr02nB396bpS_SFcOZdrEo,5929
 geoseeq/cli/progress_bar.py,sha256=p1Xl01nkYxSBZCB30ue2verIIi22W93m3ZAMAxipD0g,738
 geoseeq/cli/project.py,sha256=V5SdXm2Hwo2lxrkpwRDedw-mAE4XnM2uwT-Gj1D90VQ,3030
@@ -69,7 +69,7 @@ geoseeq/plotting/map/overlay.py,sha256=4VmxqOESTQra9tPr8b8OLEUhJSit9lNipabeSznEY
 geoseeq/result/__init__.py,sha256=IFHIyRV8ZzuKIfwfze1SXgcKwNMcSgMAknLHMkwjXIU,356
 geoseeq/result/bioinfo.py,sha256=QQtbyogrdro9avJSN0713sxLVnVeA24mFw3hWtKDKyw,1782
 geoseeq/result/file_chunker.py,sha256=bXq1csuRtqMB5sbH-AfWo6gdPwrivv5DJPuHVj-h08w,1758
-geoseeq/result/file_download.py,sha256=2VFy_p20VxAu1ItNNM1PBcDKSp9dhRuyOhcb5UBwYEU,7805
+geoseeq/result/file_download.py,sha256=KalIkwBbFI8xRpbhToixfd1KMAu_0FYwxdKq146NAHw,7832
 geoseeq/result/file_upload.py,sha256=xs1DrI-h4ZP7xN8HPBc3SFpcPAxR5HAolraP1Zu7tvE,10648
 geoseeq/result/result_file.py,sha256=1Yj9fkZhds3J-tay6eNH2-EHi00MovHGV1M80_ckHD8,8677
 geoseeq/result/result_folder.py,sha256=6porOXPh7Tpxw3oX5yMRPYQzNCGYqszqmFJd3SwQmTc,11122
@@ -88,9 +88,9 @@ geoseeq/vc/vc_stub.py,sha256=IQr8dI0zsWKVAeY_5ybDD6n49_3othcgfHS3P0O9tuY,3110
 tests/__init__.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0
 tests/test_api_client.py,sha256=TS5njc5pcPP_Ycy-ljcfPVT1hQRBsFVdQ0lCqBmoesU,12810
 tests/test_plotting.py,sha256=TcTu-2ARr8sxZJ7wPQxmbs3-gHw7uRvsgrhhhg0qKik,784
-geoseeq-0.6.2.dist-info/LICENSE,sha256=IuhIl1XCxXLPLJT_coN1CNqQU4Khlq7x4IdW7ioOJD8,1067
-geoseeq-0.6.2.dist-info/METADATA,sha256=WSI2kZ4-2pMME7jQCQ3Hzg9dU3Gm7R6tFrKdTj1PCbg,4803
-geoseeq-0.6.2.dist-info/WHEEL,sha256=GJ7t_kWBFywbagK5eo9IoUwLW6oyOeTKmQ-9iHFVNxQ,92
-geoseeq-0.6.2.dist-info/entry_points.txt,sha256=yF-6KDM8zXib4Al0qn49TX-qM7PUkWUIcYtsgt36rjM,45
-geoseeq-0.6.2.dist-info/top_level.txt,sha256=zZk7mmeaqAYqFJG8nq2DTgSQPbflRjJwkDIhNURPDEU,14
-geoseeq-0.6.2.dist-info/RECORD,,
+geoseeq-0.6.3.dist-info/LICENSE,sha256=IuhIl1XCxXLPLJT_coN1CNqQU4Khlq7x4IdW7ioOJD8,1067
+geoseeq-0.6.3.dist-info/METADATA,sha256=IH-VB_1NsbGTLGO_j2OuJunReO7L-FSnougvAgZUQkE,4915
+geoseeq-0.6.3.dist-info/WHEEL,sha256=y4mX-SOX4fYIkonsAGA5N0Oy-8_gI4FXw5HNI1xqvWg,91
+geoseeq-0.6.3.dist-info/entry_points.txt,sha256=yF-6KDM8zXib4Al0qn49TX-qM7PUkWUIcYtsgt36rjM,45
+geoseeq-0.6.3.dist-info/top_level.txt,sha256=zZk7mmeaqAYqFJG8nq2DTgSQPbflRjJwkDIhNURPDEU,14
+geoseeq-0.6.3.dist-info/RECORD,,

{geoseeq-0.6.2.dist-info → geoseeq-0.6.3.dist-info}/WHEEL

@@ -1,5 +1,5 @@
 Wheel-Version: 1.0
-Generator: bdist_wheel (0.43.0)
+Generator: setuptools (70.2.0)
 Root-Is-Purelib: true
 Tag: py3-none-any