Question: How to use "Make" for STAR-Fusion?
0
gravatar for abdul.suboor123
6 months ago by
Huazhong Agricultural University, China
abdul.suboor1230 wrote:

I have downloaded tar file of STAR-Fusion, extracted it and then I try "make' but in the end t shows error, I don't know why?. and tell me after Make, how to use it?

cd plugins && make
make[1]: Entering directory `/public/home/skabdul/Data/sofwares/STAR-Fusion-v1.5.0.FULL11/STAR-Fusion-v1.5.0/plugins'
tar xvf Set-IntervalTree-0.01.tar.gz && \
       cd Set-IntervalTree-0.01 && \
       perl Makefile.PL && \
       make && \
       mv lib/Set ../../PerlLib/ && \
       mv blib/arch/auto ../../PerlLib && \
       mv blib/lib/auto/Set/IntervalTree/autosplit.ix ../../PerlLib/auto/Set/IntervalTree/.
Set-IntervalTree-0.01/
Set-IntervalTree-0.01/src/
Set-IntervalTree-0.01/src/Makefile
Set-IntervalTree-0.01/src/interval_tree.h
Set-IntervalTree-0.01/src/test_main.cc
Set-IntervalTree-0.01/lib/
Set-IntervalTree-0.01/lib/Set/
Set-IntervalTree-0.01/lib/Set/IntervalTree.pm
Set-IntervalTree-0.01/Changes
Set-IntervalTree-0.01/MANIFEST
Set-IntervalTree-0.01/t/
Set-IntervalTree-0.01/t/Set-IntervalTree.t
Set-IntervalTree-0.01/typemap
Set-IntervalTree-0.01/perlobject.map
Set-IntervalTree-0.01/IntervalTree.xs
Set-IntervalTree-0.01/Makefile.PL
Set-IntervalTree-0.01/README
Set-IntervalTree-0.01/META.yml
Generating a Unix-style Makefile
Writing Makefile for Set::IntervalTree
Writing MYMETA.yml and MYMETA.json
make[2]: Entering directory `/public/home/skabdul/Data/sofwares/STAR-Fusion-v1.5.0.FULL11/STAR-Fusion-v1.5.0/plugins/Set-IntervalTree-0.01'
Skip blib/lib/Set/IntervalTree.pm (unchanged)
Running Mkbootstrap for Set::IntervalTree ()
chmod 644 "IntervalTree.bs"
g++ -c  -Isrc -D_REENTRANT -D_GNU_SOURCE -O2 -march=native -fPIC -fwrapv -fno-strict-aliasing -pipe -fstack-protector-strong -I/usr/local/include -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -g -O0   -DVERSION=\"0.01\" -DXS_VERSION=\"0.01\" -fPIC "-I/public/home/software/opt/bio/software/Perl/5.22.1-foss-2016b/lib/perl5/5.22.1/x86_64-linux-thread-multi/CORE"  -Isrc IntervalTree.c
rm -f blib/arch/auto/Set/IntervalTree/IntervalTree.so
g++  -shared -O2 -L/usr/local/lib -fstack-protector-strong IntervalTree.o  -o blib/arch/auto/Set/IntervalTree/IntervalTree.so   \
            \

chmod 755 blib/arch/auto/Set/IntervalTree/IntervalTree.so
"/public/home/software/opt/bio/software/Perl/5.22.1-foss-2016b/bin/perl" -MExtUtils::Command::MM -e 'cp_nonempty' -- IntervalTree.bs blib/arch/auto/Set/IntervalTree/IntervalTree.bs 644
Manifying 1 pod document
make[2]: Leaving directory `/public/home/skabdul/Data/sofwares/STAR-Fusion-v1.5.0.FULL11/STAR-Fusion-v1.5.0/plugins/Set-IntervalTree-0.01'
mv: cannot move `lib/Set' to `../../PerlLib/Set': Directory not empty
make[1]: *** [all] Error 1
make[1]: Leaving directory `/public/home/skabdul/Data/sofwares/STAR-Fusion-v1.5.0.FULL11/STAR-Fusion-v1.5.0/plugins'
make: *** [all] Error 2
make star-fusion • 263 views
ADD COMMENTlink written 6 months ago by abdul.suboor1230
2

Just install it with conda.

ADD REPLYlink written 6 months ago by Devon Ryan90k
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