perf: autobump bio/gdc-client/download

bio/gdc-client/download/environment.linux-64.pin.txt

@@ -0,0 +1,61 @@
+# This file may be used to create an environment using:
+# $ conda create --name <env> --file <this file>
+# platform: linux-64
+@EXPLICIT
+https://conda.anaconda.org/conda-forge/linux-64/_libgcc_mutex-0.1-conda_forge.tar.bz2#d7c89558ba9fa0495403155b64376d81
+https://conda.anaconda.org/conda-forge/linux-64/ca-certificates-2024.7.4-hbcca054_0.conda#23ab7665c5f63cfb9f1f6195256daac6
+https://conda.anaconda.org/conda-forge/linux-64/ld_impl_linux-64-2.40-hf3520f5_7.conda#b80f2f396ca2c28b8c14c437a4ed1e74
+https://conda.anaconda.org/conda-forge/linux-64/python_abi-3.7-4_cp37m.conda#d5fa71a1bac31ad985348ffff6b399c4
+https://conda.anaconda.org/conda-forge/linux-64/libgomp-14.1.0-h77fa898_0.conda#ae061a5ed5f05818acdf9adab72c146d
+https://conda.anaconda.org/conda-forge/linux-64/_openmp_mutex-4.5-2_gnu.tar.bz2#73aaf86a425cc6e73fcf236a5a46396d
+https://conda.anaconda.org/conda-forge/linux-64/libgcc-ng-14.1.0-h77fa898_0.conda#ca0fad6a41ddaef54a153b78eccb5037
+https://conda.anaconda.org/conda-forge/linux-64/libffi-3.4.2-h7f98852_5.tar.bz2#d645c6d2ac96843a2bfaccd2d62b3ac3
+https://conda.anaconda.org/conda-forge/linux-64/libiconv-1.17-hd590300_2.conda#d66573916ffcf376178462f1b61c941e
+https://conda.anaconda.org/conda-forge/linux-64/libnsl-2.0.1-hd590300_0.conda#30fd6e37fe21f86f4bd26d6ee73eeec7
+https://conda.anaconda.org/conda-forge/linux-64/libstdcxx-ng-14.1.0-hc0a3c3a_0.conda#1cb187a157136398ddbaae90713e2498
+https://conda.anaconda.org/conda-forge/linux-64/libzlib-1.3.1-h4ab18f5_1.conda#57d7dc60e9325e3de37ff8dffd18e814
+https://conda.anaconda.org/conda-forge/linux-64/ncurses-6.5-h59595ed_0.conda#fcea371545eda051b6deafb24889fc69
+https://conda.anaconda.org/conda-forge/linux-64/openssl-3.1.1-hd590300_0.conda#92c4e93948f2d7ba3e82ded3f6cbff31
+https://conda.anaconda.org/conda-forge/linux-64/xz-5.2.6-h166bdaf_0.tar.bz2#2161070d867d1b1204ea749c8eec4ef0
+https://conda.anaconda.org/conda-forge/linux-64/yaml-0.2.5-h7f98852_2.tar.bz2#4cb3ad778ec2d5a7acbdf254eb1c42ae
+https://conda.anaconda.org/conda-forge/linux-64/icu-75.1-he02047a_0.conda#8b189310083baabfb622af68fd9d3ae3
+https://conda.anaconda.org/conda-forge/linux-64/libsqlite-3.46.0-hde9e2c9_0.conda#18aa975d2094c34aef978060ae7da7d8
+https://conda.anaconda.org/conda-forge/linux-64/readline-8.2-h8228510_1.conda#47d31b792659ce70f470b5c82fdfb7a4
+https://conda.anaconda.org/conda-forge/linux-64/tk-8.6.13-noxft_h4845f30_101.conda#d453b98d9c83e71da0741bb0ff4d76bc
+https://conda.anaconda.org/conda-forge/linux-64/libxml2-2.12.7-he7c6b58_4.conda#08a9265c637230c37cb1be4a6cad4536
+https://conda.anaconda.org/conda-forge/linux-64/sqlite-3.46.0-h6d4b2fc_0.conda#77ea8dff5cf8550cc8f5629a6af56323
+https://conda.anaconda.org/conda-forge/linux-64/libxslt-1.1.39-h76b75d6_0.conda#e71f31f8cfb0a91439f2086fc8aa0461
+https://conda.anaconda.org/conda-forge/linux-64/python-3.7.12-hf930737_100_cpython.tar.bz2#416558a6f46b7a1fa8db7d0e98aff56a
+https://conda.anaconda.org/conda-forge/noarch/attrs-24.2.0-pyh71513ae_0.conda#6732fa52eb8e66e5afeb32db8701a791
+https://conda.anaconda.org/conda-forge/linux-64/brotli-python-1.0.9-py37hd23a5d3_7.tar.bz2#f330e49790eb1af580c0d710e63c8cb0
+https://conda.anaconda.org/conda-forge/noarch/certifi-2024.7.4-pyhd8ed1ab_0.conda#24e7fd6ca65997938fff9e5ab6f653e4
+https://conda.anaconda.org/conda-forge/noarch/charset-normalizer-3.3.2-pyhd8ed1ab_0.conda#7f4a9e3fcff3f6356ae99244a014da6a
+https://conda.anaconda.org/conda-forge/noarch/idna-3.7-pyhd8ed1ab_0.conda#c0cc1420498b17414d8617d0b9f506ca
+https://conda.anaconda.org/conda-forge/linux-64/lxml-4.9.1-py37h540881e_0.tar.bz2#a8906be3fc6b955e81c655a7a6bc601f
+https://conda.anaconda.org/conda-forge/noarch/pkgutil-resolve-name-1.3.10-pyhd8ed1ab_1.conda#405678b942f2481cecdb3e010f4925d9
+https://conda.anaconda.org/conda-forge/noarch/pyasn1-0.6.0-pyhd8ed1ab_0.conda#d528d00a110a974e75aa6db6a4f04dc7
+https://conda.anaconda.org/conda-forge/noarch/pycparser-2.21-pyhd8ed1ab_0.tar.bz2#076becd9e05608f8dc72757d5f3a91ff
+https://conda.anaconda.org/conda-forge/linux-64/pyrsistent-0.18.1-py37h540881e_1.tar.bz2#8e25160800dafbc2a24c0aaa99a981ef
+https://conda.anaconda.org/conda-forge/linux-64/pysocks-1.7.1-py37h89c1867_5.tar.bz2#8c4b0563f96363ee99f1ab864616ac63
+https://conda.anaconda.org/conda-forge/linux-64/pyyaml-6.0-py37h540881e_4.tar.bz2#f231119f9790da6da6bd93b250b7e42e
+https://conda.anaconda.org/conda-forge/noarch/setuptools-69.0.3-pyhd8ed1ab_0.conda#40695fdfd15a92121ed2922900d0308b
+https://conda.anaconda.org/conda-forge/noarch/six-1.16.0-pyh6c4a22f_0.tar.bz2#e5f25f8dbc060e9a8d912e432202afc2
+https://conda.anaconda.org/conda-forge/noarch/sortedcontainers-2.4.0-pyhd8ed1ab_0.tar.bz2#6d6552722448103793743dabfbda532d
+https://conda.anaconda.org/conda-forge/noarch/termcolor-2.3.0-pyhd8ed1ab_0.conda#440d508f025b1692168caaf436504af3
+https://conda.anaconda.org/conda-forge/noarch/typing_extensions-4.7.1-pyha770c72_0.conda#c39d6a09fe819de4951c2642629d9115
+https://conda.anaconda.org/conda-forge/noarch/wheel-0.42.0-pyhd8ed1ab_0.conda#1cdea58981c5cbc17b51973bcaddcea7
+https://conda.anaconda.org/conda-forge/noarch/zipp-3.15.0-pyhd8ed1ab_0.conda#13018819ca8f5b7cc675a8faf1f5fedf
+https://conda.anaconda.org/conda-forge/linux-64/cffi-1.15.1-py37h43b0acd_1.tar.bz2#5111b64bdfdd72d85086ec49c952fe0d
+https://conda.anaconda.org/conda-forge/linux-64/importlib-metadata-4.11.4-py37h89c1867_0.tar.bz2#71107630527e4bd82932952351231efe
+https://conda.anaconda.org/conda-forge/noarch/importlib_resources-6.0.0-pyhd8ed1ab_0.conda#acf36c4210f71dbf45a83409a9b5ff4d
+https://conda.anaconda.org/conda-forge/noarch/intervaltree-3.1.0-pyhd8ed1ab_1.conda#e32bb5b0369e819c4dde653d4c4572f3
+https://conda.anaconda.org/conda-forge/noarch/pip-24.0-pyhd8ed1ab_0.conda#f586ac1e56c8638b64f9c8122a7b8a67
+https://conda.anaconda.org/conda-forge/noarch/python-utils-3.6.0-pyhd8ed1ab_0.conda#64f841b5319404bbc5962fa8bd7b860a
+https://conda.anaconda.org/conda-forge/noarch/urllib3-2.2.1-pyhd8ed1ab_0.conda#08807a87fa7af10754d46f63b368e016
+https://conda.anaconda.org/conda-forge/linux-64/cryptography-38.0.2-py37h5994e8b_1.tar.bz2#5a8bb0074be9d20d456957f92b72beed
+https://conda.anaconda.org/conda-forge/noarch/jsonschema-4.17.3-pyhd8ed1ab_0.conda#723268a468177cd44568eb8f794e0d80
+https://conda.anaconda.org/conda-forge/noarch/progressbar2-4.2.0-pyhd8ed1ab_0.tar.bz2#d883564cf1e9ba190f6b285036c5f949
+https://conda.anaconda.org/conda-forge/noarch/requests-2.32.2-pyhd8ed1ab_0.conda#e1643b34b19df8c028a4f00bf5df58a6
+https://conda.anaconda.org/conda-forge/linux-64/pyopenssl-18.0.0-py37_1000.tar.bz2#43b7c2e9139ad57d86cf27835461541d
+https://conda.anaconda.org/conda-forge/noarch/ndg-httpsclient-0.5.1-py_1.tar.bz2#0204e1481c4cd9065d772f6556f00a16
+https://conda.anaconda.org/bioconda/noarch/gdc-client-2.0-pyhdfd78af_0.tar.bz2#ec458c6058468fd0453a00c4df66339a

bio/gdc-client/download/environment.yaml

@@ -3,4 +3,4 @@ channels:
   - bioconda
   - nodefaults
 dependencies:
-  - gdc-client =1.6.1
+  - gdc-client =2.0

bio/gdc-client/download/meta.yaml

@@ -1,4 +1,5 @@
 name: "GDC Data Transfer Tool data download"
 description: Download GDC data files with the gdc-client.
+url: https://gdc.cancer.gov/access-data/gdc-data-transfer-tool
 authors:
   - David Lähnemann

test.py

@@ -3192,6 +3192,10 @@ def test_gdc_download():
         "bio/gdc-client/download",
         ["snakemake", "--cores", "1", "raw/testing_sample.maf.gz", "--use-conda", "-F"],
     )
+    run(
+        "bio/gdc-client/download",
+        ["snakemake", "--cores", "1", "raw/testing_sample.bam", "--use-conda", "-F"],
+    )
 
 
 @skip_if_not_modified