[med-svn] [Git][med-team/bcbio][master] More dependencies

[Steffen Möller]

Steffen Möller pushed to branch master at Debian Med / bcbio


Commits:
207e7cea by Steffen Möller at 2019-11-26T14:06:31Z
More dependencies

- - - - -


2 changed files:

- debian/TODO
- debian/control


Changes:

=====================================
debian/TODO
=====================================
@@ -33,25 +33,25 @@ dependencies that only surfaced as a need because of some better testing
 convinced that this is no longer required.
 
   Unclear
-        beautifulsoup4
-        dnapi
-        fadapa
-        htslib	# not called directly?
+        beautifulsoup4 https://www.crummy.com/software/BeautifulSoup/
         ipyparallel >=6.0.2
         ipython-cluster-helper >=0.6.1
-        msgpack-python
-        py
-        pycrypto
-        pytest-cov >=2.6.1
-        pytest-mock
+        #py # conda-specific
         python-dateutil >=2.5.0	# likely obsolete?
-        pyyaml
-        seaborn # not called directly?
+        pyyaml https://pyyaml.org/wiki/PyYAML
         seqcluster # not yet in new
+ To be packaged
+	dnapi https://github.com/jnktsj/DNApi
+        fadapa https://github.com/fadapa/fadapa
+        pycrypto
  Available in Debian but not added as a dependency (yet)
         boto
-        pip
+        htslib	# not called directly?
+        #pip # ridiculous
         openssl >=1.1.1c,<1.1.2a
+        pytest-mock
+        pytest-cov
+        seaborn # not called directly?
         yamllint 
  Already a dependency
         pytest # an implicit python build dependency
@@ -65,6 +65,7 @@ convinced that this is no longer required.
         joblib >=0.12
         logbook
         matplotlib
+        msgpack-python https://msgpack.org/
         mock
         python
         pandas


=====================================
debian/control
=====================================
@@ -82,7 +82,8 @@ Recommends:
          python3-tabulate
 Suggests:
          bcbio-doc,
-         python3-bioblend
+         python3-bioblend,
+         python3-msgpack
 Description: library for analysing high-throughput sequencing data
  This package installs the Python 3 libraries of the bcbio-nextgen
  toolkit implementing best-practice pipelines for fully automated high



View it on GitLab: https://salsa.debian.org/med-team/bcbio/commit/207e7cead05c044a2617352ee57bf0f3003a5a64

-- 
View it on GitLab: https://salsa.debian.org/med-team/bcbio/commit/207e7cead05c044a2617352ee57bf0f3003a5a64
You're receiving this email because of your account on salsa.debian.org.


-------------- next part --------------
An HTML attachment was scrubbed...
URL: <http://alioth-lists.debian.net/pipermail/debian-med-commit/attachments/20191126/ef6efced/attachment-0001.html>