Bonface Munyoki
2b61288f72
Move packages to genetwork1 propagated inputs
* gn/services/genenetwork.scm: Move some package defs to ...
* gn/packages/genenetwork.scm [propagated-inputs]: ... here.
1 year ago
Bonface Munyoki
8d4351d436
packages: python24: Replace with ipfs file link
* gn/packages/python24.scm: (GN1-thirdparty-sources): Use ipfs link
1 year ago
2b62451fe0
gn: javascript: Add javascript-font-awesome
* gn/packages/javascript.scm: (javascript-font-awesome): New package.
* gn/packages/javascript.scm: (genenetwork2) [propagated-inputs]: Add
javascript-font-awesome.
Signed-off-by: BonfaceKilz <me@bonfacemunyoki.com>
1 year ago
Efraim Flashner
8a00f84b33
octopus config changes
1 year ago
3f8c84a33d
gn: javascript: Replace javascript-zxcvbn-async with javascript-zxcvbn
Signed-off-by: BonfaceKilz <me@bonfacemunyoki.com>
1 year ago
Efraim Flashner
4482bc32c6
gn: bio-vcf upstreamed
1 year ago
Efraim Flashner
fa6fd8f305
gn: update bio-ruby
1 year ago
Efraim Flashner
8ceb607527
gn: update ratspub to 0.4.5.
1 year ago
3f1e25d3a4
gn: javascript: Add xtermjs and associated css styling
* gn/packages/javascript.scm:
(javascript-xterm): New package.
(javascript-xterm-style): New package.
Signed-off-by: BonfaceKilz <me@bonfacemunyoki.com>
1 year ago
Bonface Munyoki
7ec8ce82b9
gn: services: gn1-httpd-config: Use MemorySession for sessions
See:
<http://modpython.org/live/mod_python-3.3.1/doc-html/pyapi-sess-classes.html >
1 year ago
Bonface Munyoki
8cb0d77354
gn: genenetwork1: Create "useralt" and replace "user" with it
* gn/packages/genenetwork.scm (genenetwork1):
[arguments]: In 'changes-for-deployed-service, copy "web/webqtl/user" to
"web/webqtl/useralt" and replace how "user" is imported in
"web/webqtl/main.py"
1 year ago
Bonface Munyoki
a63306a1b1
gn: services: gn1-httpd-config: Replace SetHandler with AddHandler
* gn/services/gn1-httpd-config.scm (GN1-httpd-config): Use "AddHandler
mod_python .py". This allows all python modules and submodules to be loaded by
modpython.
1 year ago
Bonface Munyoki
e56e6f5efb
gn: services: gn1-httpd-config: Change document root to "/web/"
1 year ago
Bonface Munyoki
cbbf6d6a96
gn: services: gn1-httpd-config: Make apache display static content
Static content here is: images, javascript and CSS.
* gn/services/gn1-httpd-config.scm (GNI-httpd-config): Add extra apache
directive for showing images, javascript, and CSS.
1 year ago
c2eb5e18d6
ruby-redis: new
1 year ago
96be345eb7
gemma: revert to latest
1 year ago
33984a12b1
fix
1 year ago
Efraim Flashner
f0a7a7774b
gn: genenetwork1 service: Factor out httpd config.
2 years ago
Efraim Flashner
821b25bc3f
gn: lizardfs: Update package
2 years ago
Bonface Munyoki
5faea0c3e1
gn: python-twint: Patch Token class in order to get refreshTokens
* gn/packages/twint.scm [patches]: Add python-twint-token.patch.
* python-twint-token.patch: New file.
2 years ago
Bonface Munyoki
1eb8f35d65
gn: javascript: Update javascript-underscore to 1.12.0
2 years ago
3c5f75739f
Updated gemma
2 years ago
Efraim Flashner
d09831c40a
octopus: Add lizardfs service
2 years ago
b35a5989ce
Update gemma-gn2
2 years ago
0659daea6f
Updated gemma package for GN2
2 years ago
be517e1e23
Try htslib with codecs
2 years ago
3ebdd5d2e0
Remove stuff that is in trunk
2 years ago
Efraim Flashner
5c785d70a3
gn: rust-handlegraph-0.3, rust-ndarray-0.12 upstreamed
2 years ago
9400c210a1
gn: javascript: Use correct datatable-scroller library
* gn/packages/javascript.scm (javascript-datatables-scroller): Update to 2.0.3.
[propagated-inputs]: Add javascript-datatables-scroller-style.
[synopsis]: Update it.
(javascript-datatables-scroller-style): New package.
Signed-off-by: BonfaceKilz <bonfacemunyoki@gmail.com>
2 years ago
Efraim Flashner
54c43ad0cd
gn: modularize slurm service
2 years ago
Bonface Munyoki
ac6999acd5
gn: python3-genenetwork2: Generate svg graph from python3-package
* gn/packages/genenetwork.scm (python3-genenetwork2):
[native-inputs]: Add graphviz.
[arguments]{generate-dag-svg-file}: New phase.
2 years ago
Bonface Munyoki
bee25d7a67
gn: python3-genenetwork2: Remove unnecessary begin form
* gn/packages/genenetwork.scm (python3-genenetwork2):
[arguments] {generate-graph}: Remove begin form.
2 years ago
Efraim Flashner
b418d966b1
gn: fix module imports
2 years ago
Bonface Munyoki
3cc2d27580
gn: python3-genenetwork2: Generate graph from python3-package
* gn/packages/genenetwork.scm: Add new #:use-modules: (guix graph) (guix
scripts graph) (guix store)
(python3-genenetwork2)[arguments]{generate-graph}: New phase after install
that uses d3js to generate a new graph which uses d3js as a backend.
2 years ago
Bonface Munyoki
8909e4d885
gn: python3-genenetwork2: Add package link in generated deps file
* gn/packages/genenetwork.scm (python3-genenetwork2):
[arguments]{generate-dependency-file}: Add link to "genenetwork.scm" file.
2 years ago
Efraim Flashner
3bd06f793a
octopus: update slurm services
2 years ago
Bonface Munyoki
18082c3bdd
gn: python3-genenetwork2: Generate static dependencies file
* gn/packages/genenetwork.scm (python3-genenetwork2):
[arguments]{generate-dependency-file}: Add new phase after "install" that
generates a "DEPENDENCY.md" file which will be displayed in the gn2 web
interface.
2 years ago
Efraim Flashner
1d456b37ca
octopus: add slurm services
2 years ago
Efraim Flashner
091e1391ff
gn: remove unecessary import
2 years ago
Efraim Flashner
6355e42e6a
gn: python-xlsxwriter available upstream.
2 years ago
697a8d85dd
gemma-gn2: updated to latest
2 years ago
Efraim Flashner
16aeca47b1
octopus: Add munge service, initial octopus OS config
2 years ago
Efraim Flashner
d142bda43b
gn: Add lizardfs
2 years ago
Efraim Flashner
4034fd9b19
upstream cwltools and dependant packages
2 years ago
8a66ab55ca
Updated CWL
2 years ago
f129c4fc90
cwltools: updated
2 years ago
Bonface Munyoki
ad741c19d6
gn: genenetwork2: Remove vim from propagated inputs
* gn/packages/genenetwork.scm (genenetwork2):
[propagated-inputs]: Remove vim. Right now, building vim fails, thereby
causing python3-genenetwork2 to fail.
2 years ago
Bonface Munyoki
86acd15607
gn: python3-genenetwork: Replace python-mistune with python-markdown
2 years ago
Bonface Munyoki
743cf0cc93
gn: python3-genenetwork2: Comment out python-flask-socketio
* gn/packages/genenetwork.scm (python3-genenetwork2):
[propagated-inputs]: Comment out python-flask-socketio. Causes build on
Penguin2 to fail.
2 years ago
Bonface Munyoki
04750b767e
gn: python-flask-socketio: New inputs
* gn/packages/python.scm (python-flask-socketio): Add support for eventlet.
[propagated-inputs]: Add python-dnspython, python-eventlet, python-monotonic.
2 years ago
Alexander Kabui
