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| -rw-r--r-- | gnu/packages/bioinformatics.scm | 39 |
1 files changed, 39 insertions, 0 deletions
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm index 6f3bc96c9e..f38c0c07ef 100644 --- a/gnu/packages/bioinformatics.scm +++ b/gnu/packages/bioinformatics.scm @@ -1994,6 +1994,45 @@ multiple sequence alignments.") (define-public python2-bx-python (package-with-python2 python-bx-python)) +(define-public python-pyega3 + (package + (name "python-pyega3") + (version "3.4.1") + (source (origin + (method url-fetch) + (uri (pypi-uri "pyega3" version)) + (sha256 + (base32 + "1k736in8g27rarx65ym9xk50x53zjg75h37bb8ljynxv04rypx2q")))) + (build-system python-build-system) + (arguments + `(#:tests? #f)) ; The tests require network access. + (native-inputs + `(("python-psutil" ,python-psutil) + ("python-htsget" ,python-htsget))) + (propagated-inputs + `(("python-requests" ,python-requests) + ("python-tqdm" ,python-tqdm) + ("python-urllib3" ,python-urllib3) + ("python-responses" ,python-responses))) + (home-page "https://github.com/EGA-archive/ega-download-client") + (synopsis "Python client for EGA") + (description "This package is a python-based tool for viewing and +downloading files from authorized EGA datasets. It uses the EGA data API and +has several key features: +@itemize +@item Files are transferred over secure https connections and received + unencrypted, so no need for decryption after download. +@item Downloads resume from where they left off in the event that the + connection is interrupted. +@item Supports file segmenting and parallelized download of segments, + improving overall performance. +@item After download completes, file integrity is verified using checksums. +@item Implements the GA4GH-compliant htsget protocol for download of genomic + ranges for data files with accompanying index files. +@end itemize\n") + (license license:asl2.0))) + (define-public python-pysam (package (name "python-pysam") |