NAME
shelf - Search for HPC packages in the cluster
VERSION
version 0.9.0
SYNOPSIS
shelf [options] search_key
DESCRIPTION
Scan installed packages in the NBI HPC. The search is case insensitive. Will use a cache file to speed up the search.
OPTIONS
- -l, --legacy-only
-
Only display software in the legacy catalogue.
- -n, --new-only
-
Only display software in the new catalogue (containers).
- --refresh
-
Force a refresh of the cache file.
- --verbose
-
Prints more information about the packages.
- --version
-
Prints the version of the script.
OUTPUT
When searching for a query string, the script will print the name and how to activate it:
shelf metaphlan
Will produce:
MetaPhlAn source package 9020df39-c4ad-402b-b299-896159114bd7
metaphlan2-2.7.5 source package /nbi/software/testing/bin/metaphlan2-2.7.5
metaphlan-3.0 source package /ei/software/testing/bin/metaphlan-3.0
metaphlan-2f1b17a1f4e9 source package /ei/software/testing/bin/metaphlan-2f1b17a1f4e9
metaphlan2-2.96.1 source package /ei/software/testing/bin/metaphlan2-2.96.1
MetaPhlAn source package edb34606-aeeb-41c2-890b-079c2ef1fd1c
metaphlan-3.0.13 source package /nbi/software/testing/bin/metaphlan-3.0.13
metaphlan-2.0 source package /ei/software/testing/bin/metaphlan-2.0
metaphlan2-2.7.8 source package /nbi/software/testing/bin/metaphlan2-2.7.8
When a singularity package ID is specified, if a manifest is found it will print the details:
shelf 9020df39-c4ad-402b-b299-896159114bd7
Will produce:
== MetaPhlAn 3.0.10 == (QIB)
Provides:
- metahplan
- read_fastx.py
- merge_metaphlan_tables.py
Description: MetaPhlAn is a computational tool for profiling the composition of microbial communities
(Bacteria, Archaea and Eukaryotes) from metagenomic shotgun sequencing data (i.e. not 16S) with species-level.
With StrainPhlAn 3.0, it is possible to perform accurate strain-level microbial profiling.
[https://github.com/biobakery/MetaPhlAn/wiki/MetaPhlAn-3.0]
Build date: UNK
source package 9020df39-c4ad-402b-b299-896159114bd7
AUTHOR
Andrea Telatin <proch@cpan.org>
COPYRIGHT AND LICENSE
This software is Copyright (c) 2023 by Andrea Telatin.
This is free software, licensed under:
The MIT (X11) License