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* gn/packages/gemini.scm (tissue): Update to 0.1.0-1.fd6668c.
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* gn/packages/genenetwork.scm: Import module crates-io.
(genenetwork3) [propagated-inputs]: Add gn-rust-correlations.
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* gn/packages/crates-io.scm (gn-rust-correlation): New variable
Signed-off-by: BonfaceKilz <me@bonfacemunyoki.com>
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* gn/packages/crates-io.scm (rust-gsl): New variable.
Signed-off-by: BonfaceKilz <me@bonfacemunyoki.com>
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* gn/packages/crates-io.scm (rust-gsl-sys): New variable.
Signed-off-by: BonfaceKilz <me@bonfacemunyoki.com>
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* gn/packages/gemini.scm (tissue): Update to 0.1.0-0.2866d0c.
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* gn/packages/gemini.scm (tissue): Update to 0.1.0-0.2ef55e6.
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* gn/packages/gemini.scm: Do not import (gnu packages
version-control). Import (gnu packages guile-xyz) and (guix gexp).
(tissue): Update to 0.1.0-0.983fc85.
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* gn/packages/genenetwork.scm (commit): Update it.
(source): Update hash.
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* gn/packages/genenetwork.scm (commit): Update it.
(source): Update hash.
(propagated-inputs): Remove python-ipfshttpclient.
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* gn/packages/genenetwork.scm (python-seaborn-without-tests,
python-pingouin-with-working-python-seaborn): Delete variables.
(genenetwork3)[propagated-inputs]: Replace
python-pingouin-with-working-python-seaborn with upstream
python-pingouin.
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* .guix-channel: Depend on specific commit of Guix upstream.
* README.org: Update recommended channels.scm and explain dependence
on specific commit.
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* gn/packages/genenetwork.scm (commit): Update it.
(source): Update hash.
(propagated-inputs): Add python-lmdb.
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python2-biopython has been removed from Guix upstream.
* gn/packages/bioinformatics.scm (python2-biopython): New variable.
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* gn/packages/bioinformatics.scm: Import (gnu packages ocaml) required
by dependencies of pplacer.
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pplacer and pplacer-scripts have been removed from Guix upstream.
* gn/packages/bioinformatics.scm (pplacer, pplacer-scripts): New
variables.
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python-pytest-runner-2 has been removed from Guix upstream.
* gn/packages/bioinformatics.scm (python-pytest-runner-2): New
variable.
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- Genenetwork3 depends on diffutils
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Add a package definition for the GeneNetwork Quality Control
application.
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*
gn/services/databases.scm (<virtuoso-configuration>)[maximum-dirty-buffers]:
New field.
(virtuoso-shepherd-service): Serialize maximum-dirty-buffers field.
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*
gn/services/databases.scm (<virtuoso-configuration>)[number-of-buffers]:
New field.
(virtuoso-shepherd-service): Serialize number-of-buffers field.
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* gn/packages/riscv.scm (cva6)[arguments]: Set #:make-flags instead of
overriding the build phase.
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* gn/packages/riscv.scm (cva6)[source]: Use upstream openhwgroup
source instead of the cornell-brg fork.
[arguments]: Add fix-stdout phase. Pass RISV=0 to make in build phase.
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* gn/packages/riscv.scm (cva6)[arguments]: In the custom install
phase, install executable as ariane instead of Variane_testharness.
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* gn/packages/riscv.scm: Import (gn packages fpga), (gnu packages
virtualization), (guix build utils), (guix build-system gnu), (guix
gexp) and (guix licenses).
(cva6): New variable.
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* gn/packages/fpga.scm: New file.
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* gn/packages/gemini.scm (skribilo-with-gemtext-reader): Rename to
skribilo-latest and switch to the latest commit on the master branch.
(tissue)[propagated-inputs]: Replace skribilo-with-gemtext-reader with
skribilo-latest.
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* gn/packages/gemini.scm (tissue)[arguments]: In the custom
patch-source-shebangs phase, set the absolute path to guile, not git,
in the shebang.
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* gn/packages/gemini.scm (tissue)[arguments]: Replace the
patch-source-shebangs phase with a custom one.
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