update maketargz and holyboxcompile

ablab · Jan 13, 2021 · fe141b4 · fe141b4
1 parent 1c28e29
commit fe141b4
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Showing 2 changed files with 7 additions and 3 deletions.
diff --git a/assembler/src/tools/spades_holybox_compile.sh b/assembler/src/tools/spades_holybox_compile.sh
@@ -1,13 +1,19 @@
 #!/bin/bash
 
 # Script for compiling SPAdes using holy build box
-# To compile spades run
+# To compile spades run once:
 # udocker load -i /home/akorobeynikov/spades-buildbox.tar
 # udocker create --name=buildbox cab/spades-buildbox6-64:2.0.0-a4
+# cd /tmp
+# curl -LO https://github.com/Kitware/CMake/releases/download/v3.19.2/cmake-3.19.2-Linux-x86_64.tar.gz
+# tar zxvf cmake-3.19.2-Linux-x86_64.tar.gz
+# udocker run  --user=$(id -u) --volume=/tmp/:/temp buildbox cp -rv /temp/cmake-3.19.2-Linux-x86_64 /hbb/share/cmake-3.19
+# Then run:
 # udocker run  --user=$(id -u) --volume=<path to SPAdes repository>:/spades --cpuset-cpus=16 buildbox bash /spades/assembler/src/tools/spades_holybox_compile.sh
 
 set -e
 source /hbb_exe/activate
+export PATH=/hbb/share/cmake-3.19/bin/:$PATH
 
 set -x
 

diff --git a/make-targz.sh b/make-targz.sh
@@ -13,8 +13,6 @@ cp assembler/src/CMakeLists.txt $SRC_DIR/
 
 cp -r assembler/configs $TARGET_DIR/configs
 cp -r assembler/ext $TARGET_DIR/ext
-rm -r $TARGET_DIR/ext/include/cute
-rm -r $TARGET_DIR/ext/include/teamcity_boost
 
 # cleaning .pyc and .pyo
 rm -f $SRC_DIR/*.pyc