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2019-08-26gn: rust-qtlreaper: Update to 0.1.4....* gn/packages/genenetwork.scm (rust-qtlreaper): Update to 0.1.4. [arguments]: Add rust-ndarray to cargo-inputs. * gn/packages/crates-io.scm: Add many new crates. Efraim Flashner
2019-08-25gn: remove some upstreamed cratesEfraim Flashner
2019-08-23gn: Update some cratesEfraim Flashner
2019-08-21gn: edirect-gn: Fix typo...* gn/packages/bioinformatics.scm (edirect-gn)[supported-systems]: Replace atom with list. Efraim Flashner
2019-08-21gn: edirect-gn: Add native-search-path....* gn/packages/bioinformatics.scm (edirect-gn)[native-search-paths]: New field. Efraim Flashner
2019-08-21gn: edirect-gn: Install missing binary....* gn/packages/bioinformatics.scm (edirect-gn)[arguments]: Install missing 'efetch' binary. Sort installed files alphabetically. Substitute call to 'exec perl' for all potentially affected files. Efraim Flashner
2019-08-20gn: Add custom edirect packageEfraim Flashner
2019-08-15gn: hyphy: Update to 2.5.0....* gn/packages/hyphy.scm (hyphy): Update to 2.5.0. [source]: Download using 'git-fetch'. [inputs]: Add curl, openssl. [arguments]: Add test-target. Efraim Flashner
2019-08-13gn: Clean up some cratesEfraim Flashner
2019-08-1242 crates upstreamedEfraim Flashner
2019-08-12gn: mongodb upstreamedEfraim Flashner
2019-08-12gn: add missing module importsEfraim Flashner
2019-08-09gn: openfbya: Clean up package....* gn/packages/openfyba.scm (openfyba)[source]: Don't use unstable tarball. [arguments]: Use 'boostrap phase to replace 'boostrap phase. Adjust for change in source. Efraim Flashner
2019-08-09gn: 4store upstreamedEfraim Flashner
2019-08-06gn: clFFT: Update to 2.12.2....* gn/packages/arrayfire.scm (clFFT): Update to 2.12.2. Efraim Flashner
2019-08-06gn: Fix building arrayfire.Efraim Flashner
2019-08-05gn: varscan: Fix build....* gn/packages/bioinformatics.scm (varscan)[arguments]: Disable tests. Update all custom phases. [home-page]: Use https. [description]: Add it. Efraim Flashner
2019-08-05gn: remove some upstream packagesEfraim Flashner
2019-08-05gn: Remove some duplicate packagesEfraim Flashner
2019-08-05gn: contra: Remove bundled source....* gn/packages/bioinformatics.scm (contra)[source]: Add snippet to remove bundled sources. Efraim Flashner
2019-08-05gn: contra: Update package definition....* gn/packages/bioinformatics.scm (contra)[arguments]: Update custom 'install phase. Efraim Flashner
2019-08-05gn: contra: Update source uri....* gn/packages/bioinformatics.scm (contra)[source]: Update to new folder structure. Efraim Flashner
2019-08-05gn: pindel: Update package definition....* gn/packages/bioinformatics.scm (pindel)[arguments]: Use 'invoke' when possible. Parameterize custom 'check phase. Efraim Flashner
2019-08-05gn: pindel: Don't use unstable tarball....* gn/packages/bioinformatics.scm (pindel)[source]: Download using 'git-fetch'. Efraim Flashner
2019-08-05gn: Add edirect-11....* gn/packages/bioinformatics.scm (edirect-11): New variable. Efraim Flashner
2019-08-05gn: Add ratspub....* gn/packages/ratspub.scm (ratspub): New variable. Efraim Flashner
2019-08-04gn: rust-qtlreaper: Update with upstream changes....* gn/packages/genenetwork.scm (rust-qtlreaper)[arguments]: Remove custom phases. Efraim Flashner
2019-08-04bnw: Build binaries....* gn/packages/bnw.scm (bnw)[build-system]: Use gnu-build-system. [arguments]: Adjust accordingly. [native-inputs]: Remove source. [inputs]: Remove bash-minimal, add rmath-standalone. Efraim Flashner
2019-08-01Merge branch 'master' of gitlab.com:genenetwork/guix-bioinformaticsPjotr Prins
2019-07-30minor rust updatesEfraim Flashner
2019-07-30gn: minor rust updatesEfraim Flashner
2019-07-29gn: python-shellescape: Clean up package definition....* gn/packages/python.scm (python-shellescape): Re-indent. [source]: Use pypi uri. [inputs]: Move python-setuptools ... [native-inputs]: ... to here. [license]: Use 'license' prefix. Efraim Flashner
2019-07-29gn: python-subprocess32: Correctly mark as version 3.5.3....* gn/packages/python.scm (python-subprocess32): Re-indent. [version]: Correct to 3.5.3, which is what the source was downloading. [source]: Use pypi uri. Efraim Flashner
2019-07-29gn: python-typing-extensions: Clean up package definition....* gn/packages/python.scm (python-typing-extensions): Re-indent. [source]: Use pypi uri. Efraim Flashner
2019-07-29gn: python-bagit: Clean up package definition....* gn/packages/python.scm (python-bagit)[source]: Use pypi uri. [synopsis, description]: Update. Efraim Flashner
2019-07-29gn: Add rust-qtlreaper and dependencies....* gn/packages/genenetwork.scm (rust-qtlreaper): New variable. * gn/packages/crates-io.scm (~300 packages): New variables. Efraim Flashner
2019-07-22gn: bnw: Add javascript libraries....* gn/packages/bnw.scm (bnw)[inputs]: Add web-jquery, web-font-awesome, javascript-cytoscape, javascript-cytoscape-2, javascript-dagre, javascript-lodash, javascript-cytoscape-dagre, javascript-cytoscape-panzoom, javascript-d3js-4, javascript-d3js-multi, javascript-canvas-toblob, javascript-filesaver. [arguments]: Add references to new inputs. Efraim Flashner
2019-07-22gn: Add javascript-filesaver....* gn/packages/javascript.scm (javascript-filesaver): New variable. Efraim Flashner
2019-07-22gn: Add javascript-canvas-toblob....* gn/packages/javascript.scm (javascript-canvas-toblob): New variable. Efraim Flashner
2019-07-22gn: Add javascript-d3js-multi....* gn/packages/javascript.scm (javascript-d3js-multi): New variable. Efraim Flashner
2019-07-22gn: Add javascript-d3js-4....* gn/packages/javascript.scm (javascript-d3js-4): New variable. Efraim Flashner
2019-07-22gn: Add javascript-d3js....* gn/packages/javascript.scm (javascript-d3js): New variable. Efraim Flashner
2019-07-22gn: Add javascript-lodash....* gn/packages/javascrpt.scm (javascript-lodash): New variable. Efraim Flashner
2019-07-22gn: Add font-awesome....* gn/packages/web.scm (font-awesome): New variable. Efraim Flashner
2019-07-22gn: Add javascript-cytoscape-dagre....* gn/packages/javascript.scm (javascript-cytoscape-dagre): New variable. Efraim Flashner
2019-07-22gn: Add javascript-dagre....* gn/packages/javascript.scm (javascript-dagre): New variable. Efraim Flashner
2019-07-22gn: bnw: Patch '/usr/bin/dot' references....* gn/packages/bnw.scm (bnw): Add substitute* to patch '/usr/bin/dot' calls with store graphviz references. Efraim Flashner
2019-07-21gn: Add javascript-cytoscape-popper....* gn/packages/web.scm (javascript-cytoscape-popper): New variable. Efraim Flashner
2019-07-21gn: Add javascript-qtip2....* gn/packages/javascript.scm (javascript-qtip2): New variable. Efraim Flashner
2019-07-21gn: web-bootstrap-native: Clean up package....* gn/packages/web.scm (web-bootstrap-native): Re-indent. [arguments]: Clean up build. Efraim Flashner
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