Update smudgeplot to 0.4.0 (#51904)

* Update smudgeplot to 0.4.0 * edit install command * update dependencies * patch gcc in Makefile * edit tests * add pandas --------- Co-authored-by: mencian <[email protected]>
bioconda · Nov 4, 2024 · 17ddc5c · 17ddc5c
1 parent 049acd0
commit 17ddc5c
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diff --git a/recipes/smudgeplot/0001-Makefile.patch b/recipes/smudgeplot/0001-Makefile.patch
@@ -0,0 +1,13 @@
+diff --git a/Makefile b/Makefile
+index ad29043..4dff5ca 100644
+--- a/Makefile
++++ b/Makefile
+@@ -15,7 +15,7 @@ $(INSTALL_PREFIX)/bin/% : exec/%
+ 	install -C $< $(INSTALL_PREFIX)/bin
+
+ exec/hetmers: src_ploidyplot/PloidyPlot.c src_ploidyplot/libfastk.c src_ploidyplot/libfastk.h src_ploidyplot/matrix.c src_ploidyplot/matrix.h
+-	gcc $(CFLAGS) -o $@ src_ploidyplot/PloidyPlot.c src_ploidyplot/libfastk.c src_ploidyplot/matrix.c -lpthread -lm
++	$(CC) $(CFLAGS) -o $@ src_ploidyplot/PloidyPlot.c src_ploidyplot/libfastk.c src_ploidyplot/matrix.c -lpthread -lm
+
+
+ .PHONY : clean
diff --git a/recipes/smudgeplot/build.sh b/recipes/smudgeplot/build.sh
@@ -1,10 +1,13 @@
 #!/bin/bash
 
+export CPATH="${PREFIX}/include"
+
 mkdir -p $PREFIX/bin
 
-# Install the current codebase as an R package
-Rscript install.R
+make -s INSTALL_PREFIX="${PREFIX}" CC="${CC}" -j"${CPU_COUNT}"
 
 # Install executables
 install -C exec/smudgeplot.py $PREFIX/bin
+install -C exec/hetmers $PREFIX/bin
 install -C exec/smudgeplot_plot.R $PREFIX/bin
+install -C exec/centrality_plot.R $PREFIX/bin
diff --git a/recipes/smudgeplot/meta.yaml b/recipes/smudgeplot/meta.yaml
@@ -1,17 +1,19 @@
-{% set version = "0.3.0" %}
+{% set version = "0.4.0" %}
 
 package:
   name: smudgeplot
   version: {{ version }}
 
 build:
-  number: 1
+  number: 0
   run_exports:
     - {{ pin_subpackage('smudgeplot', max_pin="x.x") }}
 
 source:
   url: https://github.com/KamilSJaron/smudgeplot/archive/v{{ version }}.tar.gz
-  sha256: b95b61e517de8f33c49910825a5c68e9a0d1e27cc33463939ef4c994e61dda92
+  sha256: 61ca437e29830a415e6f18f39d5d1fd994d20ea4a9bd46d1ab5fdcc52fa4008d
+  patches:
+    - 0001-Makefile.patch
 
 requirements:
   build:
@@ -31,10 +33,11 @@ requirements:
     - r-argparse
     - numpy
     - scipy
+    - pandas
 
 test:
   commands:
-    - smudgeplot.py --version 2>&1 | grep 'Running'
+    - "smudgeplot.py --version 2>&1"
 
 about:
   home: https://github.com/KamilSJaron/smudgeplot