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cluster:73 [2021/11/24 19:05] hmeij07 [EasyBuild] |
cluster:73 [2022/04/01 14:09] hmeij07 [Paleogenomics Tools] |
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Some compilations require 7.x and are in / | Some compilations require 7.x and are in / | ||
+ | |||
+ | ====== HPC SDK ====== | ||
+ | |||
+ | * https:// | ||
+ | * Nvidia SDK v 22.2 | ||
====== Magenta ====== | ====== Magenta ====== | ||
Line 120: | Line 125: | ||
cudatoolkit | cudatoolkit | ||
hoomd | hoomd | ||
+ | |||
+ | |||
+ | # ahh, hamed found an error | ||
+ | conda install -c conda-forge cudatoolkit=10.2 | ||
+ | |||
+ | The following packages will be DOWNGRADED: | ||
+ | |||
+ | cudatoolkit | ||
+ | hoomd 2.9.4-gpu_py38h02d30ca_1 --> 2.9.4-gpu_py38h5bdc439_1 | ||
+ | |||
</ | </ | ||
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</ | </ | ||
+ | |||
+ | Added\\ | ||
+ | --- // | ||
+ | # https:// | ||
+ | |||
+ | < | ||
+ | |||
+ | conda install -c bioconda samtools=1.9 --force-reinstall | ||
+ | |||
+ | |||
+ | The following NEW packages will be INSTALLED: | ||
+ | |||
+ | gettext | ||
+ | htslib | ||
+ | libdeflate | ||
+ | libglib | ||
+ | libiconv | ||
+ | |||
+ | The following packages will be UPDATED: | ||
+ | |||
+ | cffi pkgs/ | ||
+ | libedit | ||
+ | samtools | ||
+ | |||
+ | The following packages will be SUPERSEDED by a higher-priority channel: | ||
+ | |||
+ | glib pkgs/ | ||
+ | libffi | ||
+ | ncurses | ||
+ | python | ||
+ | sqlite | ||
+ | |||
+ | $ samtools --version | ||
+ | samtools 1.9 | ||
+ | Using htslib 1.9 | ||
+ | Copyright (C) 2018 Genome Research Ltd. | ||
+ | |||
+ | </ | ||
+ | |||
====== pytraj ====== | ====== pytraj ====== | ||
Line 638: | Line 692: | ||
====== OpenHPC ====== | ====== OpenHPC ====== | ||
- | So I remember where I put the repos ''/ | + | So I remember where I put the tar repo file |
- | * whitetail tar ball for centos7/ | + | * OpenHPC v2.4 |
- | * http:// | + | * Rocky 8.5 |
- | * http://repos.openhpc.community/ohpc-1.3/1.3.9/ | + | * Slurm 20.11.8 |
- | * https://github.com/ | + | * Warewulf 3.9 |
+ | * x86_64 | ||
+ | |||
+ | < | ||
+ | |||
+ | [root@cottontail2 ~]# ll /share/apps/src/cottontail2/ | ||
+ | total 8290421 | ||
+ | -rw------- 1 root root | ||
+ | -rw-r--r-- 1 root root 10720 Mar 17 09:35 ohpc-release-2-1.el8.x86_64.rpm | ||
+ | -rw-r--r-- 1 root root 8531681280 Mar 17 09:33 OpenHPC-2.4.EL_8.x86_64.tar | ||
+ | |||
+ | </code> | ||
====== OneAPI ====== | ====== OneAPI ====== | ||
Line 854: | Line 919: | ||
</ | </ | ||
+ | * **mapDamage2** | ||
+ | * https:// | ||
+ | * docker container is broke | ||
+ | * requires centos6 so queues hp12, mw128 | ||
+ | * conda install -c ' | ||
+ | |||
+ | |||
+ | < | ||
+ | |||
+ | # env | ||
+ | export PATH="/ | ||
+ | export LD_LIBRARY_PATH="/ | ||
+ | |||
+ | The following NEW packages will be INSTALLED: | ||
+ | |||
+ | mapdamage2 | ||
+ | pysam bioconda/ | ||
+ | seqtk bioconda/ | ||
+ | |||
+ | |||
+ | </ | ||
Line 2948: | Line 3034: | ||
* https:// | * https:// | ||
* C11++ on CentOS6, two version of gcc | * C11++ on CentOS6, two version of gcc | ||
- | * read the R-3.6.1_configure file in ''/ | + | * read the R-3.6.1_configure file in ''/ |
< | < |