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2022-02-18gn: genenetwork3: Remove implicit inputs.Arun Isaac
coreutils and diffutils are implicit inputs of the python-build-system. They don't have to be included explicitly. * gn/packages/genenetwork.scm (genenetwork3)[propagated-inputs]: Remove coreutils and diffutils.
2022-02-18gn: genenetwork3: Update to 0.1.0-2.83a7aa7.Arun Isaac
* gn/packages/genenetwork.scm (genenetwork3): Update to 0.1.0-2.83a7aa7. [arguments]: Enable tests.
2022-02-18gn: genenetwork3: Move test inputs to native inputs.Arun Isaac
Test inputs are not required to actually run the built program. They should therefore be in native-inputs. They should not be propagated. * gn/packages/genenetwork.scm (genenetwork3)[propagated-inputs]: Move python-mypy, python-mypy-extensions, python-pylint, python-hypothesis and python-pytest to ... [native-inputs]: ... here.
2022-02-14Add pytest and hypothesis for automated testingFrederick Muriuki Muriithi
In the effort to improve automated testing, this commit adds two python modules that are useful for the tests.
2022-02-14gn: Upstream 2 julia packagesEfraim Flashner
2022-02-09gn: genenetwork2: Add python-ijson.Alexander Kabui
* gn/packages/genenetwork.scm (genenetwork2)[propagated-inputs]: Add python-ijson. Signed-off-by: Arun Isaac <arunisaac@systemreboot.net>
2022-02-09gn: genenetwork3: Add r-ctl.Alexander Kabui
* gn/packages/genenetwork.scm (genenetwork3)[propagated-inputs]: Add r-ctl. Signed-off-by: Arun Isaac <arunisaac@systemreboot.net>
2022-02-05gn: tissue: Add guile to inputs.Arun Isaac
* gn/packages/gemini.scm (tissue)[inputs]: Add guile-3.0.
2022-02-05gn: Add tissue.Arun Isaac
* gn/packages/gemini.scm (tissue): New variable.
2022-02-04remove upstreamed cl-css-litejgart
2022-02-04gn: packages: lisp: remove upstreamed cl-snakesjgart
2022-02-02gn: packages: lisp: add cl-css-litejgart
2022-01-31gn: julia package updatesEfraim Flashner
2022-01-27gn: julia: Prepare packages for upstreamingEfraim Flashner
2022-01-27julia package cleanupEfraim Flashner
2022-01-27gn: packages: emacs-xyz: add emacs-trident-mode.jgart
2022-01-26add notebook-toolsjgart
2022-01-26add jrepjgart
2022-01-26gn: packages: crates-io: add rust-clap-for-jrepjgart
2022-01-26gn: packages: quality-control: remove utf-8-lineseparatorjgart
* upstreamed to GNU Guix
2022-01-26gn: genenetwork: Disable tests on python-seaborn.Arun Isaac
* gn/packages/genenetwork.scm (python-seaborn-without-tests, python-pingouin-with-working-python-seaborn): New variables. (genenetwork3)[propagated-inputs]: Replace python-pingouin with python-pingouin-with-working-python-seaborn.
2022-01-26gn: packages: lisp: Add cl-scribble.jgart
2022-01-26gn: packages: lisp: Add cl-meta.jgart
2022-01-26gn: packages: lisp: Add cl-fare-memoization.jgart
2022-01-26gn: packages: lisp: Add cl-lorem-ipsum.jgart
2022-01-26gn: packages: lisp: Add sbcl-fwoar-lisputils.jgart
2022-01-26gn: packages: lisp: Add cl-2am.jgart
2022-01-26gn: packages: lisp: Add cl-defstar.jgart
2022-01-26gn: packages: Add cl-snakes.jgart
2022-01-26gn: packages: lisp: Add sbcl-rollbar.jgart
2022-01-26gn: packages: utf-8-lineseparator: Don't use tag name in version field.jgart
2022-01-25gn: Fix failing python-twint build.BonfaceKilz
* gn/packages/twint.scm (python-aiohttp-3.7.2): Delete it. (python-aiohttp-socks-0.5.5): Delete it. (python-yarl-1.6.2): Delete it. (python-twint) [propagated-inputs]: Replace python-aiohttp-socks-0.5.5 with python-aiohttp-socks and python-yarl-1.6.2 with python-yarl.
2022-01-24gn: quality-control: add libcsvjgart
2022-01-24gn: utf-8-lineseparator: Update to cj7.jgart
2022-01-23gn: Add verkko.Efraim Flashner
2022-01-23gn: graphaligner: Fix building and update to 1.0.14Efraim Flashner
2022-01-22gn: gemma-wrapper: added coreutils and note on testingpjotrp
2022-01-22gn: gemma-wrapper: updated to 0.99.6pjotrp
2022-01-22gn: gemma-wrapper: updated to 0.99.6pjotrp
2022-01-13gn: quality-control: Add utf-8-lineseparator.jgart
* gn/packages/quality-control.scm: New file.
2022-01-09gn: Remove upstreamed node packagesEfraim Flashner
2022-01-09gn: Unconditionally use current rust package.Efraim Flashner
2022-01-09gn: check for new releases of giteaEfraim Flashner
2022-01-06gn: genenetwork: Add diffutilsBonfaceKilz
* gn/packages/genenetwork.scm (genenetwork3)[propagated-inputs]: Add diffutils.
2022-01-05Revert "gn: genenetwork: Add pudb"BonfaceKilz
This reverts commit f7e876d53832cf1d5d4b19118266e910e6100ea9. Add an extra dependency by running something like: ``` guix shell -L /home/bonface/projects/guix-bioinformatics \ -L /home/bonface/projects/guix-past/modules -C \ -D pudb -f guix.scm ```
2022-01-05gn: genenetwork: Add pudbBonfaceKilz
* gn/packages/genenetwork.scm (genenetwork3)[propagated-inputs]: Add pudb for trouble-shooting purposes.
2022-01-01genenetwork3: updated and disabled testsPjotr Prins
2022-01-01genenetwork2: put a hack in to fix failing build. Please amendPjotr Prins
2021-12-29gnu: Add python2-bx-python.Arun Isaac
python2-bx-python has been removed from upstream Guix. * gn/packages/bioinformatics.scm (python2-bx-python): New variable.
2021-12-29Reference non-public rust packages using @@.Arun Isaac
rust-1.47 and rust-1.49 are no longer exported from (gnu packages rust). * gn/packages/bioinformatics.scm (gfaffix): Reference rust-1.49 using @@. * gn/packages/crates-io.scm (rust-handlegraph-0.7): Reference rust-1.47 using @@.
generated by cgit v1.2.3 (git 2.44.0) at 2024-11-05 09:23:00 +0000