Mercurial > repos > galaxy-australia > alphafold2

comparison alphafold.xml @ 19:2f7702fd0a4c draft

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planemo upload for repository https://github.com/usegalaxy-au/tools-au commit cd0379c8ecc24977dffa462c1897d402c85fa4e6
author galaxy-australia
date Wed, 08 May 2024 06:26:55 +0000
parents e4a053d67e24
children 6ab1a261520a
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18:e4a053d67e24 19:2f7702fd0a4c
1 <tool id="alphafold" name="Alphafold 2" version="@TOOL_VERSION@+galaxy@VERSION_SUFFIX@" profile="20.01"> 1 <tool id="alphafold" name="Alphafold 2" version="@TOOL_VERSION@+galaxy@VERSION_SUFFIX@" profile="20.01">
2 <description> - AI-guided 3D structural prediction of proteins</description> 2 <description> - AI-guided 3D structural prediction of proteins</description>
3 <macros> 3 <macros>
4 <token name="@TOOL_VERSION@">2.3.1</token> 4 <token name="@TOOL_VERSION@">2.3.1</token>
5 <token name="@TOOL_MINOR_VERSION@">2.3</token> 5 <token name="@TOOL_MINOR_VERSION@">2.3</token>
6 <token name="@VERSION_SUFFIX@">4</token> 6 <token name="@VERSION_SUFFIX@">5</token>
7 <import>macro_output.xml</import> 7 <import>macro_output.xml</import>
8 <import>macro_test_output.xml</import> 8 <import>macro_test_output.xml</import>
9 </macros> 9 </macros>
10 <edam_topics> 10 <edam_topics>
11 <edam_topic>topic_0082</edam_topic> 11 <edam_topic>topic_0082</edam_topic>
46 && python3 '$__tool_directory__/scripts/validate_fasta.py' input.fasta 46 && python3 '$__tool_directory__/scripts/validate_fasta.py' input.fasta
47 --min_length \${ALPHAFOLD_AA_LENGTH_MIN:-0} 47 --min_length \${ALPHAFOLD_AA_LENGTH_MIN:-0}
48 --max_length \${ALPHAFOLD_AA_LENGTH_MAX:-0} 48 --max_length \${ALPHAFOLD_AA_LENGTH_MAX:-0}
49 #if $model_preset == 'multimer': 49 #if $model_preset == 'multimer':
50 --multimer 50 --multimer
51 --max-sequences \${ALPHAFOLD_MAX_SEQUENCES:-10}
51 #end if 52 #end if
52 > alphafold.fasta 53 > alphafold.fasta
53 54
54 ## Env vars ------------------------------------------------------------------- 55 ## Env vars -------------------------------------------------------------------
55 && export TF_FORCE_UNIFIED_MEMORY=1 56 && export TF_FORCE_UNIFIED_MEMORY=1