cluster:73
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| Both sides previous revision Previous revision Next revision | Previous revision Next revision Both sides next revision | ||
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cluster:73 [2021/08/11 19:31] hmeij07 [Paleogenomics Tools] |
cluster:73 [2021/08/19 12:58] hmeij07 [Kallisto & Trinity & FastQC] |
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| Line 18: | Line 18: | ||
| on either cottontail2 or node n33 located at / | on either cottontail2 or node n33 located at / | ||
| Some compilations require 7.x and are in / | Some compilations require 7.x and are in / | ||
| + | |||
| + | ====== Miniconda2 ===== | ||
| + | |||
| + | * miniconda2 (python 2.7) is hiding in section | ||
| + | * " | ||
| + | * some packages require centos 6 (like cufflinks) | ||
| + | * many packages are also available in miniconda3 section | ||
| + | * requires centos 7 (python 3.9) | ||
| + | |||
| + | ====== Sequencing Tools #4 ====== | ||
| + | |||
| + | Added to miniconda3, see section " | ||
| + | |||
| + | * Requires centos7 so queues mwgpu, amber128, exx96 | ||
| + | * debug server greentail52 | ||
| + | * PREFIX=/ | ||
| + | * python 3.9 | ||
| + | * jcoolon lab | ||
| + | | ||
| + | |||
| + | < | ||
| + | |||
| + | # environment | ||
| + | source / | ||
| + | export PATH=/ | ||
| + | export LD_LIBRARY_PATH=/ | ||
| + | |||
| + | |||
| + | libgcc-7.2.0 | ||
| + | samtools-1.7 | ||
| + | bowtie2-2.2.5 | ||
| + | perl-5.26.2 | ||
| + | bedtools-2.30.0 | ||
| + | |||
| + | # cufflinks requires centos 6, weird, so also added to miniconda2, | ||
| + | # see section " | ||
| + | |||
| + | </ | ||
| ====== Sequencing Tools #3 ====== | ====== Sequencing Tools #3 ====== | ||
| Line 935: | Line 973: | ||
| < | < | ||
| + | |||
| + | --- // | ||
| + | \\ | ||
| + | Added packages below for Prof Coolon' | ||
| + | |||
| + | < | ||
| + | |||
| + | conda list | egrep -i " | ||
| + | bedtools | ||
| + | bowtie2 | ||
| + | cufflinks | ||
| + | samtools | ||
| + | |||
| + | </ | ||
| export PATH="/ | export PATH="/ | ||
cluster/73.txt ยท Last modified: 2024/05/15 12:58 by hmeij07
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