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computers:bioinfo_server_configuration

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computers:bioinfo_server_configuration [2023/11/09 12:32] – [Unicycler] chkuocomputers:bioinfo_server_configuration [2024/04/19 15:47] (current) – [MrBayes] chkuo
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 chkuo@koa[/usr/local/beagle-lib-3.1.2]$ sudo make install chkuo@koa[/usr/local/beagle-lib-3.1.2]$ sudo make install
 # install mrbayes # install mrbayes
-chkuo@koa[/usr/local]$ sudo wget https://github.com/NBISweden/MrBayes/raw/v3.2.6/mrbayes-3.2.6.tar.gz +# 2024/04/19 
-chkuo@koa[/usr/local]$ sudo tar xzf mrbayes-3.2.6.tar.gz +# 3.2.6 -> 3.2.7 
-chkuo@koa[/usr/local]$ sudo chown -R root:root mrbayes-3.2.6 +chkuo@koa[/usr/local]$ sudo wget https://github.com/NBISweden/MrBayes/releases/download/v3.2.7/mrbayes-3.2.7.tar.gz 
-chkuo@koa[/usr/local]$ cd mrbayes-3.2.6/src +chkuo@koa[/usr/local]$ sudo tar xzf mrbayes-3.2.7.tar.gz 
-chkuo@koa[/usr/local/mrbayes-3.2.6/src]$ sudo autoconf +chkuo@koa[/usr/local]$ sudo chown -R root:root mrbayes-3.2.7 
-chkuo@koa[/usr/local/mrbayes-3.2.6/src]$ sudo ./configure --enable-mpi=yes +chkuo@koa[/usr/local]$ cd mrbayes-3.2.7 
-chkuo@koa[/usr/local/mrbayes-3.2.6/src]$ sudo make +chkuo@koa[/usr/local/mrbayes-3.2.7]$ sudo ./configure --with-mpi 
-chkuo@koa[/usr/local/mrbayes-3.2.6/src]$ sudo make install+chkuo@koa[/usr/local/mrbayes-3.2.7]$ sudo make 
 +chkuo@koa[/usr/local/mrbayes-3.2.7]$ sudo make install 
 +chkuo@koa[/usr/local/mrbayes-3.2.7]$ /usr/local/bin/mb -v 
 +Version:   3.2.7
 </code> </code>
  
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 <code bash> <code bash>
-# 2023/10/02+# 2024/02/07 
 +# fast
 chkuo@koa[/usr/local]$ sudo tar -xzvf signalp-6.0h.fast.tar.gz chkuo@koa[/usr/local]$ sudo tar -xzvf signalp-6.0h.fast.tar.gz
 chkuo@koa[/usr/local]$ sudo chown -R root:root signalp6_fast chkuo@koa[/usr/local]$ sudo chown -R root:root signalp6_fast
- +chkuo@koa[/usr/local]$ sudo pip3 install /usr/local/signalp6_fast/signalp-6-package/ 
 +# slow
 chkuo@koa[/usr/local]$ sudo tar -xzvf signalp-6.0h.slow_sequential.tar.gz chkuo@koa[/usr/local]$ sudo tar -xzvf signalp-6.0h.slow_sequential.tar.gz
 chkuo@koa[/usr/local]$ sudo chown -R root:root signalp6_slow_sequential chkuo@koa[/usr/local]$ sudo chown -R root:root signalp6_slow_sequential
 +chkuo@koa[/usr/local]$ sudo pip3 install /usr/local/signalp6_slow_sequential/signalp-6-package/
  
 +chkuo@koa[/usr/local]$ which signalp6 
 +/usr/local/bin/signalp6 
 +chkuo@koa[/usr/local]$ signalp6 --version 
 +SignalP 6.0 Signal peptide prediction tool 6.0h
 </code> </code>
  
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 <code bash> <code bash>
-chkuo@koa[/usr/local/bin]$ sudo wget https://github.com/ParBLiSS/FastANI/releases/download/v1.1/fastani-Linux64-v1.1.zip +# 2024/04/02 
-chkuo@koa[/usr/local/bin]$ sudo unzip fastani-Linux64-v1.1.zip  +# note: v1.34 has some error message; use v1.33 for now 
-Archive:  fastani-Linux64-v1.1.zip +chkuo@koa[/usr/local/bin]$ sudo wget https://github.com/ParBLiSS/FastANI/releases/download/v1.33/fastANI-Linux64-v1.33.zip 
-  inflating: fastANI                  +chkuo@koa[/usr/local/bin]$ sudo unzip fastANI-Linux64-v1.33.zip 
-   creating: __MACOSX/ +Archive:  fastANI-Linux64-v1.33.zip 
-  inflating: __MACOSX/._fastANI       +  inflating: fastANI    
-chkuo@koa[/usr/local/bin]$ sudo rm -r __MACOSX+chkuo@koa[/usr/local/bin]$ sudo mv fastANI fastANI_v1.33
 </code> </code>
  
computers/bioinfo_server_configuration.1699504359.txt.gz · Last modified: 2023/11/09 12:32 by chkuo