--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/CSP2/CSP2_env/env-d9b9114564458d9d-741b3de822f2aaca6c6caa4325c4afce/opt/mummer-3.23/conda_build.sh	Tue Mar 18 17:55:14 2025 -0400
@@ -0,0 +1,68 @@
+if [ -z ${CONDA_BUILD+x} ]; then
+    source /opt/conda/conda-bld/mummer_1734020773944/work/build_env_setup.sh
+fi
+#!/bin/bash
+
+set -xe
+
+BINARY=mummer
+BINARY_HOME=$PREFIX/bin
+MUMMER_HOME=$PREFIX/opt/mummer-$PKG_VERSION
+
+mkdir -p $BINARY_HOME
+mkdir -p $MUMMER_HOME
+
+# cd to location of Makefile and source
+cp -R $SRC_DIR/* $MUMMER_HOME
+
+cd $MUMMER_HOME
+
+# One of the Makefiles references a shell script not in the path
+export PATH="$PATH:."
+make CC=$CC CXX=$CXX CPPFLAGS="-O3 -DSIXTYFOURBITS"
+
+binaries="\
+combineMUMs \
+delta-filter \
+dnadiff \
+exact-tandems \
+mapview \
+mgaps \
+mummer \
+mummerplot \
+nucmer \
+promer \
+repeat-match \
+run-mummer1 \
+run-mummer3 \
+show-aligns \
+show-coords \
+show-diff \
+show-snps \
+show-tiling \
+"
+
+# patch defined(%hash) out
+# https://github.com/bioconda/bioconda-recipes/issues/1254
+
+perl -i -pe 's/defined \(%/\(%/' mummerplot
+
+#Fix escaping symbol @ included in the path to the library (mainly for conda virtual env with galaxy)
+for i in exact-tandems dnadiff mapview mummerplot nucmer promer run-mummer1 run-mummer3; do
+  perl -i -pe 's/(envs\/\_\_.*)(\K\@)/\\@/' $i
+done
+
+# fix hashbang lines to use conda's perl
+for i in dnadiff mapview mummerplot nucmer promer; do
+  sed -i.bak '1 s|^#!/.*/perl -w$|#!/usr/bin/env perl|g' $MUMMER_HOME/$i
+  rm -rf $MUMMER_HOME/$i.bak
+done
+
+for i in $binaries; do 
+  # ensure executable and setup symlink for binary
+  chmod +x $MUMMER_HOME/$i
+  ln -s "$MUMMER_HOME/$i" "$BINARY_HOME/$i"
+done
+
+# clean up
+find $MUMMER_HOME -name *.o -exec rm -f {} \;