Commit 1e5c05c4 authored by Steffen Möller's avatar Steffen Möller
Browse files

Update TODO - cthreadpool accepted, viennarna progressed

parent 5c522268

debian/TODO

+14 −20
Original line number Diff line number Diff line
@@ -43,10 +43,6 @@ package libjs-scribl (in new queue) (in crash space) 
    A surprisingly neat JavaScript library to show genomic features

       Needed for DFSG-compliance of seqcluster



package cthreadpool (in new queue) (in crash space)

   https://github.com/Pithikos/C-Thread-Pool/blob/master/thpool.h

      Needed by ViennaRNA



Package MutliQC (in crash space) (in new queue)

   https://salsa.debian.org/med-team/multiqc

     Addressed https://github.com/ewels/MultiQC/issues/800 by substuting
@@ -55,10 +51,24 @@ Package MutliQC (in crash space) (in new queue) 
     reports on external sources. For that reason and the remote depenency

     on ViennaRNA via seqcluster, also bcbio will be in contrib.

     

package pyutilib (in new queue) (in crash space)

  https://github.com/PyUtilib/pyutilib

  https://salsa.debian.org/python-team/modules/pyutilib

    needed by pyomo for testing





Packages just waiting for someone addressing the last mile for the upload

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package viennarna (in crash space)

    https://github.com/ViennaRNA/ViennaRNA

    https://salsa.debian.org/med-team/vienna-rna/blob/master/debian/changelog

       The package now has a custom license file - redistributable but non-free.

    Needed for testing seqcluster.

    Python and Perl packages are not tested, yet, not needed for seqcluster

    Package likely to be uploadable to non-free. Final checks needed.

    Documentation no longer builds with 2.4.14 would be nice to reactivate but not ultimately important for first upload.



package pyomo (in crash space)

  https://github.com/Pyomo/pyomo

  https://salsa.debian.org/science-team/pyomo
@@ -66,11 +76,6 @@ package pyomo (in crash space) 
    needed by optitype

    Status: Builds if errors in build time tests will be ignored



package pyutilib (in new queue) (in crash space)

  https://github.com/PyUtilib/pyutilib

  https://salsa.debian.org/python-team/modules/pyutilib

    needed by pyomo for testing



package python-seqcluster (in crash space)

   https://github.com/lpantano/seqcluster/

   https://salsa.debian.org/med-team/python-seqcluster
@@ -100,17 +105,6 @@ package python-seqcluster (in crash space) 
       apparently optional for bcbio: r-bioc-isomiRs - (needs r-bioc-DEGreport) all pre-depends except edgeR are in new

       apparently optional for bcbio: install_github('rstudio/rmarkdown')  -- this may be the same we have from CRAN - not checked



package viennarna (in crash space)

    https://github.com/ViennaRNA/ViennaRNA

    https://salsa.debian.org/med-team/vienna-rna/blob/master/debian/changelog

       No idea about where exactly we stand with this.

       The package now has a custom license file - redistributable but non-free.

    Needed for testing seqcluster.

	Steffen revisits ViennaRNA, will update to new upstream version this weekend

           Using current master not release because of erroneous commits of autogenerated files in 2.4.13 release source tree.

           Manual removal of folders along instructions in d/copyright

    Python and Perl packages are not functional, yet, not needed for seqcluster

    Waiting for acceptance of cthreadpool.



Packages presumed easy to package

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