Efraim Flashner
90b466488a
Adjust to new multi-target bootloader configs
9 months ago
Erik Garrison
b0d23a9508
update pangenie
9 months ago
Efraim Flashner
78e68d7f60
gn: update genecup to 1.6.
9 months ago
01cbe5a2e9
Moved packages into past/genenetwork1 and packages/pangenome to reduce chance of
breaking the main genenetwork packages.
9 months ago
eb97761d7f
Remove golang module loader
9 months ago
82d0c5cc93
genenetwork[23]: updated git checkout and commented out DAG generation
9 months ago
c47ed18241
Removed tls warning
9 months ago
cabac15be8
Removed tls to remove warnings
9 months ago
9565dbbf4e
gemma: bump to 0.98.5-pre
9 months ago
cffb080134
gemma-wrapper: update to 0.99.3
9 months ago
Efraim Flashner
e1b776b1d7
gn: Add missing import
9 months ago
Efraim Flashner
6b05f2e196
gn: make sure we use the correct rust version
9 months ago
Bonface Munyoki
ac3cdf57e7
Remove csv-diff from channel.
This is already packaged upstream.
* gn/packages/genenetwork.scm: Remove "(gn packages golang)" import.
* gn/packages/golang.scm: Delete file.
9 months ago
Bonface Munyoki
495712f5d0
gn: Add toolbar overlay for debugging genenetwork2
* gn/packages/genenetwork.scm (genenetwork2)[propagated-inputs]: Add
python-flask-debugtoolbar
10 months ago
Bonface Munyoki
55e6f9dd0d
gn: Add python-flask-debugtoolbar.
* gn/packages/python.scm (python-flask-debugtoolbar): New variable.
10 months ago
Efraim Flashner
fef68e9c57
gn: start moving calculated files to build separately
10 months ago
Efraim Flashner
d7e42fd848
openssl-1.0 deprecated upstream, moved to guix-past
10 months ago
Efraim Flashner
5a810426d7
gn: genenetwork2: Don't hardcode python version.
10 months ago
Bonface Munyoki
9d62e687b3
gn: genenetwork: Remove "#:python ,python-wrapper" from "arguments"
This fixes this error:
guix package: error: /home/bonface/projects/guix-bioinformatics/gn/packages/genenetwork.scm:295:4: package `genenetwork2@3.11-guix-84cbf35' has an invalid input: ("python" python-wrapper)
10 months ago
Efraim Flashner
b6761f9779
gn: Update gitea to 1.14.6.
10 months ago
Efraim Flashner
ba96f981eb
gn: fix genenetwork2 package definition
10 months ago
Efraim Flashner
8ad9768e05
gn: Add pirs.
10 months ago
Efraim Flashner
08d32dfa56
gn: Add pbsim2.
10 months ago
Efraim Flashner
4de2b7e3fa
gn: Add pangenie.
10 months ago
Efraim Flashner
ee9e292453
fixup genenetwork2
10 months ago
Efraim Flashner
4865664348
gn: Adjust genenetwork2 for removal of python2-genenetwork2
10 months ago
f46cc3c4fb
gemma.scm: muck out old stuff
10 months ago
3442513854
python2-genenetwork2: remove unused Python2 version of genenetwork
10 months ago
cdf65fa27f
shunit2: rename to shunit2-old, so as not to conflict with upstream
10 months ago
Bonface Munyoki
8fd543b687
gn: Update genenetwork3 to 0.0.1-guix-487e50e
10 months ago
Efraim Flashner
1430f96afe
gn: Upstream some rust crates
10 months ago
Bonface Munyoki
c1e1bf49b9
gn: genenetwork3: Add csvdiff as a propagated input
10 months ago
Erik Garrison
f7a739461e
clarify that this is an old seqwish
10 months ago
Efraim Flashner
095e987300
gn: gfaffix: Don't hardcode rust-handlegraph package version
10 months ago
Efraim Flashner
20dd6613c8
gn: rust-handlegraph-0.7: Update to 0.7.0-alpha.9.
10 months ago
Erik Garrison
b59473e017
actually update handlegraph
10 months ago
Erik Garrison
2fd5cecd21
get bugfix in rs-handlegraph
10 months ago
Efraim Flashner
4fc3b330b2
gn: code updates
10 months ago
Efraim Flashner
2e3c2a1df0
gn: Add gfaffix.
10 months ago
Efraim Flashner
84022eeab3
code updates
10 months ago
Efraim Flashner
be9fca6a04
gn: Adjust python-whatshap for upstream changes
10 months ago
a6b730ca2b
ldc: build is fine; tests fail
10 months ago
Efraim Flashner
e8274ba553
gn: Add python-whatshap
10 months ago
Bonface Munyoki
c2c1a66502
gn: golang: Add csv fast diffing tool
10 months ago
Efraim Flashner
69223db92f
gn: Provide rtg.cfg for rtg-tools.
11 months ago
Efraim Flashner
eecc939c49
gn: Add ccwl.
* gn/packages/ccwl.scm (ccwl): New variable.
11 months ago
Bonface Munyoki
183b6e2ac2
gn: Update genenetwork3 to 0.0.1-guix-7d22039
11 months ago
Efraim Flashner
6b7394db63
gn: Add rtg-tools
* gn/packages/java.scm (rtg-tools): New variable.
* gn/packages/bioinformatics (hap.py)[native-inputs]: Remove field.
[inputs]: Add rtg-tools.
[arguments]: Replace rtg-tools implementation.
11 months ago
Efraim Flashner
ac3535858a
gn: Add python24-direct.
* gn/packages/python24.scm (python24-direct): New variable.
* gn/packages/genenetwork.scm (genenetwork1)[propagated-inputs]: Add
python24-direct.
11 months ago
8572fb7ffa
gemma-wrapper: update to 0.99.1
11 months ago
pjotrp
