Update polap recipe to v0.3.7.3 (#52302)

bioconda · Nov 22, 2024 · 2a12aa6 · 2a12aa6
1 parent c75bafd
commit 2a12aa6
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Showing 2 changed files with 17 additions and 1 deletion.
diff --git a/recipes/polap/build.sh b/recipes/polap/build.sh
@@ -12,7 +12,10 @@ files=(polap
 	polap-constants.sh
 	polap-function-set-variables.sh
 	polap-git-hash-version.sh
+	polap-package-common.sh
+	polap-package-mtcontigs.sh
 	polap-parsing.sh
+	polap-revision1.sh
 	polap-test-variables.sh
 	polap-variables-common.sh
 	polap-variables-main.sh
@@ -23,6 +26,7 @@ files=(polap
 	run-polap-function-archive.sh
 	run-polap-function-assemble.sh
 	run-polap-function-bioproject.sh
+	run-polap-function-errors.sh
 	run-polap-function-include.sh
 	run-polap-function-log.sh
 	run-polap-function-menus.sh
@@ -31,44 +35,53 @@ files=(polap
 	run-polap-function-oga.sh
 	run-polap-function-polishing.sh
 	run-polap-function-seeds.sh
+	run-polap-function-taxonomy.sh
 	run-polap-function-template.sh
+	run-polap-function-test.sh
 	run-polap-function-utilities.sh
 	run-polap-function-wga.sh
 	run-polap-sh-create-depth-file.sh
 	run-polap-sh-half-cut.sh
 	run-polap-sh-minimap2-paf2tab.sh
 	run-polap-py-find-cc.py
+	run-polap-py-mtdna-find-cycle-with-node-revisits.py
 	run-polap-py-select-mtdna-2-nx-find-circular-path.py
 	run-polap-py-select-mtdna-2-nx-simple-cycles.py
 	run-polap-pairs.R
 	run-polap-r-assemble-bioproject-3-length-match.R
 	run-polap-r-blast-mtdna-1-determine-gene.R
 	run-polap-r-bridge.R
 	run-polap-r-cc2mtcontig.R
+	run-polap-r-contig2edge.R
 	run-polap-r-depth-distribution.R
 	run-polap-r-depthfilter-gfa.R
-	run-polap-r-determine-depth-range.R
 	run-polap-r-determine-depth-range_1.R
 	run-polap-r-determine-depth-range_2.R
 	run-polap-r-determine-depth-range_3.R
 	run-polap-r-determine-depth-range_4.R
 	run-polap-r-determine-depth-range_5.R
+	run-polap-r-determine-depth-range_6.R
+	run-polap-r-determine-depth-range.R
 	run-polap-r-edges-stats.R
 	run-polap-r-final-filter-mtcontig.R
 	run-polap-r-final-mtcontig.R
 	run-polap-r-final-seed-mtcontig.R
 	run-polap-r-genes-bed4.R
 	run-polap-r-genes.R
 	run-polap-r-get-bioproject-1.R
+	run-polap-r-global-richness.R
 	run-polap-r-jellyfish.R
 	run-polap-r-mtcontig-contig.R
 	run-polap-r-mtcontig.R
 	run-polap-r-pairs.R
+	run-polap-r-plastid-determine-depth-range_1.R
+	run-polap-r-plastid-determine-depth-range_6.R
 	run-polap-r-plastid-determine-depth-range.R
 	run-polap-r-plot-mtdna.R
 	run-polap-r-prepare-cc.R
 	run-polap-r-preselect-annotation.R
 	run-polap-r-select-mtdna-1-nx-gfa-links.R
+	run-polap-r-taxonomy.R
 	run-polap-r-template.R
 	run-polap-r-test-reads-bar-graph.R
 	polap.sh)

diff --git a/recipes/polap/meta.yaml b/recipes/polap/meta.yaml
@@ -40,6 +40,9 @@ requirements:
     - r-readr
     - r-stringr
     - r-tidyr
+    - r-taxize
+    - r-rgbif
+    - newick_utils
     - parallel
     - r-base
     - bioawk