GenEra Conda Recipes Submission (#51721)

* Committer: Anupam Gautam <[email protected]> TIPP_plastid is a User-Friendly Tool for De Novo Assembly of Organellar Genomes with HiFi Data * Update recipes/tipp/build.sh Co-authored-by: Martin Grigorov <[email protected]> * Update recipes/tipp/build.sh Co-authored-by: Martin Grigorov <[email protected]> * Update recipes/tipp/build.sh Co-authored-by: Martin Grigorov <[email protected]> * Update recipes/tipp/build.sh Co-authored-by: Martin Grigorov <[email protected]> * Update recipes/tipp/build.sh Co-authored-by: Martin Grigorov <[email protected]> * Update recipes/tipp/meta.yaml Co-authored-by: Martin Grigorov <[email protected]> * Committer: Anupam Gautam <[email protected]> suggestion incorporated * Committer: Anupam Gautam <[email protected]> updated meta and build. * GenEra conda recipes * removed genera files * GenEra conda recipe * cleaning * update * python updated * changes added * added test and abSENSE release * added test and abSENSE release * update * update * Update recipes/genera/meta.yaml Co-authored-by: Mervin Fansler <[email protected]> * Update recipes/genera/meta.yaml Co-authored-by: Mervin Fansler <[email protected]> * Update meta.yaml * Solved abSENSE License issue * resolved absense issue * Update recipes/genera/meta.yaml Co-authored-by: Mervin Fansler <[email protected]> * Update meta.yaml --------- Co-authored-by: Anupam Gautam <[email protected]> Co-authored-by: Martin Grigorov <[email protected]> Co-authored-by: Alicia A. Evans <[email protected]> Co-authored-by: richard-burhans <[email protected]> Co-authored-by: Mervin Fansler <[email protected]> Co-authored-by: Anupam Gautam <[email protected]>
bioconda · Nov 25, 2024 · 801fad7 · 801fad7
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diff --git a/recipes/genera/build.sh b/recipes/genera/build.sh
@@ -0,0 +1,24 @@
+#!/bin/bash
+
+# Exit on any error
+set -ex
+
+# Ensure all main scripts are executable
+chmod +x genEra Erassignment hmmEra tree2ncbitax FASTSTEP3R test_installation.sh
+
+# Define the Conda binary path
+CONDABIN="${PREFIX}/bin"
+
+# Ensure the directory exists
+mkdir -p "$CONDABIN"
+
+
+# Move executables to the Conda binary directory
+mv genEra "$CONDABIN"
+mv Erassignment "$CONDABIN"
+mv hmmEra "$CONDABIN"
+mv tree2ncbitax "$CONDABIN"
+mv FASTSTEP3R "$CONDABIN"
+mv test_installation.sh "$CONDABIN"
+
+echo "Installation complete. Executables have been moved to ${CONDABIN}."
diff --git a/recipes/genera/meta.yaml b/recipes/genera/meta.yaml
@@ -0,0 +1,45 @@
+{% set version = '1.4.2' %}
+
+package:
+   name: genera
+   version: {{ version|replace('-', '_') }}
+
+source:
+  - url: https://github.com/josuebarrera/GenEra/archive/refs/tags/v{{ version }}.tar.gz
+    sha256: acc49698b68151550b825c73f1f03dd268da2c73ecc7ac4c55eccb8bec5b1a54
+
+build:
+  number: 0
+  noarch: generic
+  run_exports:
+    - {{ pin_subpackage('genera', max_pin="x.x") }}
+
+requirements:
+  host:
+    - python >=3.8,<3.9
+  run:
+    - python >=3.8,<3.9
+    - diamond >=2.1.10
+    - mmseqs2 =14.7e284
+    - foldseek =3.915ef7d
+    - scipy =1.7.3
+    - r-seqinr =4.2_16
+    - r-optparse =1.7.3
+    - r-bio3d =2.4_3
+    - r-tidyverse =1.3.2
+    - r-phytools >=0.6_99
+    - orthofinder =2.5.5
+    - ncbitax2lin >=2.3.2
+    - absense >=1.0.1
+
+test:
+  commands:
+    - genEra -h
+    - hmmEra -h
+    - test_installation.sh -h
+
+about:
+  home: https://github.com/josuebarrera/GenEra
+  license: "GPL-3.0-or-later"
+  license_family: GPL3
+  summary: "Uncovering gene-family founder events during major evolutionary transitions in animals, plants and fungi using GenEra"