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Expand file tree Collapse file tree Original file line number Diff line number Diff line change 3737seqclean_url=" http://sourceforge.net/projects/seqclean/files/seqclean-x86_64.tgz/download"
3838mira_url=" http://sourceforge.net/projects/mira-assembler/files/MIRA/stable/mira_4.0.2_linux-gnu_x86_64_static.tar.bz2/download"
3939blast_url=" ftp://ftp.ncbi.nlm.nih.gov/blast/executables/blast+/2.2.28/ncbi-blast-2.2.28+-x64-linux.tar.gz"
40- p7zip_url=" http ://sourceforge.net/projects /p7zip/files/ p7zip/9.20 .1/p7zip_9.20.1_x86_linux_bin .tar.bz2/download "
40+ p7zip_url=" https ://downloads. sourceforge.net/project /p7zip/p7zip/9.38 .1/p7zip_9.38.1_src_all .tar.bz2"
4141# URLs for pysam and it's dependencies:
4242setuptools_url=" https://bootstrap.pypa.io/ez_setup.py"
4343cython_url=" https://github.com/cython/cython/archive/$cyver .tar.gz"
@@ -56,7 +56,7 @@ echo "Downloading programs from their respective websites... Please wait."
5656wget -c -t inf $seqclean_url -O $dldir /seqclean-x86_64.tgz
5757wget -c -t inf $mira_url -O $dldir /mira_4.0rc4_linux-gnu_x86_64_static.tar.bz2
5858wget -c -t inf $blast_url -P $dldir /
59- wget -c -t inf $p7zip_url -O $dldir /p7zip_9.20.1_x86_linux_bin.tar.bz2
59+ wget -c -t inf $p7zip_url -P $dldir /
6060wget -c -t inf $cython_url -P $dldir /
6161wget -c -t inf $pysam_url -O $dldir /pysam-0.8.2.tar.gz
6262
@@ -91,6 +91,10 @@ sed -i '/cython/d' setup.py
9191# install
9292python3 setup.py install --user
9393
94+ # Build p7zip
95+ cd $workdir /p7zip_9.38.1
96+ make all3
97+
9498
9599echo " "
96100echo " If you are reading this, than no errors occurred and all of the software \
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