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stdenv.lib -> lib

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This commit is contained in:
David Crompton
2023-05-23 14:24:16 -04:00
parent 5c2be8a078
commit 016a641c38
19 changed files with 19 additions and 19 deletions
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2
pkgs/fastqc.nix
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@@ -25,7 +25,7 @@ stdenv.mkDerivation rec {
makeWrapper $out/share/FastQC/fastqc $out/bin/fastqc --add-flags --java=${jre}/bin/java makeWrapper $out/share/FastQC/fastqc $out/bin/fastqc --add-flags --java=${jre}/bin/java
''; '';
meta = with stdenv.lib; { meta = with lib; {
homepage = https://www.bioinformatics.babraham.ac.uk/projects/fastqc/; homepage = https://www.bioinformatics.babraham.ac.uk/projects/fastqc/;
description = "A quality control tool for high throughput sequence data"; description = "A quality control tool for high throughput sequence data";
longDescription = '' longDescription = ''

2
pkgs/firedrake/exodus.nix
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@@ -21,7 +21,7 @@ stdenv.mkDerivation rec {
patches = ./exodus-include.patch; patches = ./exodus-include.patch;
sourceRoot = "${name}/exodus"; sourceRoot = "${name}/exodus";
meta = with stdenv.lib; { meta = with lib; {
homepage = "http://gsjaardema.github.io/seacas"; homepage = "http://gsjaardema.github.io/seacas";
description = "A model developed to store and retrieve data for finite element analyses."; description = "A model developed to store and retrieve data for finite element analyses.";
license = licenses.bsd3; license = licenses.bsd3;

2
pkgs/firedrake/hypre.nix
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@@ -22,7 +22,7 @@ stdenv.mkDerivation rec {
makeFlags = [ "VERBOSE=1" ]; makeFlags = [ "VERBOSE=1" ];
meta = with stdenv.lib; { meta = with lib; {
homepage = "http://www.llnl.gov/casc/hypre"; homepage = "http://www.llnl.gov/casc/hypre";
description = "Parallel solvers for sparse linear systems featuring multigrid methods."; description = "Parallel solvers for sparse linear systems featuring multigrid methods.";
license = licenses.gpl2; license = licenses.gpl2;

2
pkgs/firedrake/metis.nix
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@@ -17,7 +17,7 @@ stdenv.mkDerivation rec {
makeFlags = [ "VERBOSE=1" ]; makeFlags = [ "VERBOSE=1" ];
meta = with stdenv.lib; { meta = with lib; {
homepage = "https://bitbucket.org/petsc/metis"; homepage = "https://bitbucket.org/petsc/metis";
description = "A set of serial programs for partitioning graphs, partitioning finite element meshes, and producing fill reducing orderings for sparse matrices."; description = "A set of serial programs for partitioning graphs, partitioning finite element meshes, and producing fill reducing orderings for sparse matrices.";
}; };

2
pkgs/firedrake/parmetis.nix
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@@ -22,7 +22,7 @@ stdenv.mkDerivation rec {
cmakeFlags = [ "-DGKLIB_PATH=../headers" ]; cmakeFlags = [ "-DGKLIB_PATH=../headers" ];
makeFlags = [ "VERBOSE=1" ]; makeFlags = [ "VERBOSE=1" ];
meta = with stdenv.lib; { meta = with lib; {
homepage = "http://glaros.dtc.umn.edu/gkhome/metis/parmetis"; homepage = "http://glaros.dtc.umn.edu/gkhome/metis/parmetis";
description = "An MPI-based parallel library that implements a variety of algorithms for partitioning unstructured graphs, meshes, and for computing fill-reducing orderings of sparse matrices."; description = "An MPI-based parallel library that implements a variety of algorithms for partitioning unstructured graphs, meshes, and for computing fill-reducing orderings of sparse matrices.";
}; };

2
pkgs/firedrake/petsc.nix
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@@ -45,7 +45,7 @@ stdenv.mkDerivation rec {
setupHook = writeText "setupHook.sh" "export PETSC_DIR=@out@"; setupHook = writeText "setupHook.sh" "export PETSC_DIR=@out@";
meta = with stdenv.lib; { meta = with lib; {
homepage = "https://github.com/firedrakeproject/petsc"; homepage = "https://github.com/firedrakeproject/petsc";
description = "A suite of data structures and routines for the scalable (parallel) solution of scientific applications modeled by partial differential equations."; description = "A suite of data structures and routines for the scalable (parallel) solution of scientific applications modeled by partial differential equations.";
license = licenses.bsd2; license = licenses.bsd2;

2
pkgs/firedrake/sowing.nix
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@@ -16,7 +16,7 @@ stdenv.mkDerivation rec {
ghostscript ghostscript
]; ];
meta = with stdenv.lib; { meta = with lib; {
homepage = "https://bitbucket.org/petsc/pkg-sowing"; homepage = "https://bitbucket.org/petsc/pkg-sowing";
description = "Tools that are part of the petsc program development and maintenance environment."; description = "Tools that are part of the petsc program development and maintenance environment.";
}; };

2
pkgs/ghmm/default.nix
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@@ -45,7 +45,7 @@ stdenv.mkDerivation rec {
hardeningDisable = [ "format" ]; hardeningDisable = [ "format" ];
meta = with stdenv.lib; { meta = with lib; {
description = "The General Hidden Markov Model library (GHMM) is a freely available C library implementing efficient data structures and algorithms for basic and extended HMMs with discrete and continous emissions."; description = "The General Hidden Markov Model library (GHMM) is a freely available C library implementing efficient data structures and algorithms for basic and extended HMMs with discrete and continous emissions.";
homepage = http://ghmm.sourceforge.net; homepage = http://ghmm.sourceforge.net;
platforms = platforms.all; platforms = platforms.all;

2
pkgs/gsort/default.nix
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@@ -15,7 +15,7 @@ buildGoPackage rec {
goDeps = ./deps.nix; goDeps = ./deps.nix;
meta = with stdenv.lib; { meta = with lib; {
homepage = https://github.com/brentp/gsort; homepage = https://github.com/brentp/gsort;
description = "A tool to sort genomic files according to a genomefile."; description = "A tool to sort genomic files according to a genomefile.";
platforms = platforms.all; platforms = platforms.all;

2
pkgs/idba.nix
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@@ -25,7 +25,7 @@ stdenv.mkDerivation rec {
# stdenv # stdenv
# ]; # ];
meta = with stdenv.lib; { meta = with lib; {
homepage = https://github.com/loneknightpy/idba/; homepage = https://github.com/loneknightpy/idba/;
description = "Basic iterative de Bruijn graph assembler for second-generation sequencing reads"; description = "Basic iterative de Bruijn graph assembler for second-generation sequencing reads";
longDescription = "IDBA is the basic iterative de Bruijn graph assembler for second-generation sequencing reads. IDBA-UD, an extension of IDBA, is designed to utilize paired-end reads to assemble low-depth regions and use progressive depth on contigs to reduce errors in high-depth regions. It is a generic purpose assembler and especially good for single-cell and metagenomic sequencing data. IDBA-Hybrid is another update version of IDBA-UD, which can make use of a similar reference genome to improve assembly result. IDBA-Tran is an iterative de Bruijn graph assembler for RNA-Seq data."; longDescription = "IDBA is the basic iterative de Bruijn graph assembler for second-generation sequencing reads. IDBA-UD, an extension of IDBA, is designed to utilize paired-end reads to assemble low-depth regions and use progressive depth on contigs to reduce errors in high-depth regions. It is a generic purpose assembler and especially good for single-cell and metagenomic sequencing data. IDBA-Hybrid is another update version of IDBA-UD, which can make use of a similar reference genome to improve assembly result. IDBA-Tran is an iterative de Bruijn graph assembler for RNA-Seq data.";

2
pkgs/lumpy.nix
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@@ -46,7 +46,7 @@ stdenv.mkDerivation rec {
samtools samtools
]; ];
meta = with stdenv.lib; { meta = with lib; {
description = "A probabilistic framework for structural variant discovery."; description = "A probabilistic framework for structural variant discovery.";
homepage = https://github.com/arq5x/lumpy-sv; homepage = https://github.com/arq5x/lumpy-sv;
platforms = platforms.all; platforms = platforms.all;

2
pkgs/meraculous.nix
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@@ -30,7 +30,7 @@ stdenv.mkDerivation rec {
gnuplot gnuplot
]; ];
meta = with stdenv.lib; { meta = with lib; {
homepage = http://jgi.doe.gov/data-and-tools/meraculous; homepage = http://jgi.doe.gov/data-and-tools/meraculous;
description = "Meraculous is a whole genome assembler for Next Generation Sequencing data geared for large genomes."; description = "Meraculous is a whole genome assembler for Next Generation Sequencing data geared for large genomes.";
platforms = platforms.all; platforms = platforms.all;

2
pkgs/mfix/mfixsolver.nix
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@@ -67,7 +67,7 @@ stdenv.mkDerivation rec {
# netcdf # netcdf
]; ];
meta = with stdenv.lib; { meta = with lib; {
homepage = https://mfix.netl.doe.gov; homepage = https://mfix.netl.doe.gov;
description = "An open-source multiphase flow solver"; description = "An open-source multiphase flow solver";
platforms = platforms.all; platforms = platforms.all;

2
pkgs/openfoam.nix
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@@ -84,7 +84,7 @@ stdenv.mkDerivation rec {
mpfr mpfr
]; ];
meta = with stdenv.lib; { meta = with lib; {
homepage = http://www.openfoam.com; homepage = http://www.openfoam.com;
description = "Free open-source CFD software"; description = "Free open-source CFD software";
platforms = platforms.linux; platforms = platforms.linux;

2
pkgs/openslide/default.nix
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@@ -30,7 +30,7 @@ stdenv.mkDerivation rec {
sed -i -e 's|AM_CONDITIONAL(\[WINDOWS_RESOURCES\], \[test x$RC != x\])|AM_CONDITIONAL([WINDOWS_RESOURCES], [false])|' configure.ac sed -i -e 's|AM_CONDITIONAL(\[WINDOWS_RESOURCES\], \[test x$RC != x\])|AM_CONDITIONAL([WINDOWS_RESOURCES], [false])|' configure.ac
''; '';
meta = with stdenv.lib; { meta = with lib; {
homepage = http://openslide.org; homepage = http://openslide.org;
description = "A C library that provides a simple interface to read whole-slide images."; description = "A C library that provides a simple interface to read whole-slide images.";
platforms = platforms.all; platforms = platforms.all;

2
pkgs/sambamba.nix
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@@ -27,7 +27,7 @@ stdenv.mkDerivation rec {
zlib zlib
]; ];
meta = with stdenv.lib; { meta = with lib; {
homepage = https://github.com/lomereiter/sambamba/wiki; homepage = https://github.com/lomereiter/sambamba/wiki;
description = "Sambamba is a set of command-line tools for working with SAM/BAM file formats which are used for storing next generation sequencing (NGS) datasets."; description = "Sambamba is a set of command-line tools for working with SAM/BAM file formats which are used for storing next generation sequencing (NGS) datasets.";
platforms = platforms.all; platforms = platforms.all;

2
pkgs/samblaster.nix
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@@ -19,7 +19,7 @@ stdenv.mkDerivation rec {
buildInputs = [ ]; buildInputs = [ ];
meta = with stdenv.lib; { meta = with lib; {
description = "A fast and flexible program for marking duplicates in read-id grouped paired-end SAM files."; description = "A fast and flexible program for marking duplicates in read-id grouped paired-end SAM files.";
homepage = https://github.com/GregoryFaust/samblaster; homepage = https://github.com/GregoryFaust/samblaster;
platforms = platforms.all; platforms = platforms.all;

2
pkgs/smoove/default.nix
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@@ -31,7 +31,7 @@ buildGoPackage rec {
makeWrapper makeWrapper
]; ];
meta = with stdenv.lib; { meta = with lib; {
homepage = https://github.com/brentp/smoove; homepage = https://github.com/brentp/smoove;
description = "Wrap existing software and adds some internal read-filtering to simplify calling and genotyping structural variants."; description = "Wrap existing software and adds some internal read-filtering to simplify calling and genotyping structural variants.";
platforms = platforms.all; platforms = platforms.all;

2
pkgs/sumo.nix
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@@ -24,7 +24,7 @@ stdenv.mkDerivation rec {
curl curl
]; ];
meta = with stdenv.lib; { meta = with lib; {
homepage = http://software.dlr.de/p/sumo/home; homepage = http://software.dlr.de/p/sumo/home;
description = "SUMO is an open source, highly portable, microscopic and continuous road traffic simulation package designed to handle large road networks"; description = "SUMO is an open source, highly portable, microscopic and continuous road traffic simulation package designed to handle large road networks";
platforms = platforms.all; platforms = platforms.all;