Changes between Version 20 and Version 21 of FAQ


Ignore:
Timestamp:
03/13/23 14:31:11 (23 months ago)
Author:
gbell
Comment:

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  • FAQ

    v20 v21  
    215215  * The main commands looks like
    216216{{{
    217 sbatch -J AF200_1 --export=ALL,FASTA_NAME=Sample_protein_1.fa,USERNAME=myUsername,FASTA_PATH=proteins,AF2_WORK_DIR=/nfs/BaRC_Public/BaRC_code/shell/run_AlphaFold ./RunAlphaFold_2.0.0_slurm.sh
    218 sbatch -J AF212_1 --export=ALL,FASTA_NAME=Sample_protein_1.fa,USERNAME=myUsername,FASTA_PATH=proteins,AF2_WORK_DIR=/nfs/BaRC_Public/BaRC_code/shell/run_AlphaFold ./RunAlphaFold_2.1.2_slurm.sh
    219217sbatch -J AF220_1 --export=ALL,FASTA_NAME=Sample_protein_1.fa,USERNAME=myUsername,FASTA_PATH=proteins,AF2_WORK_DIR=/nfs/BaRC_Public/BaRC_code/shell/run_AlphaFold ./RunAlphaFold_2.2.0_slurm.sh
     218
     219sbatch -J AFmult --export=ALL,FASTA_NAME=Leucine_zipper_minimal.fa,USERNAME=myUsername,FASTA_PATH=proteins,AF2_WORK_DIR=/nfs/BaRC_Public/BaRC_code/shell/run_AlphaFold ./RunAlphaFold_multimer_2.2.0_slurm.sh
    220220}}}
    221221    where the inputs are
    222222    * AF2_WORK_DIR => project working directory
    223     * FASTA_PATH   => directory within AF2_WORK_DIR with input protein sequence
     223    * FASTA_PATH   => directory within AF2_WORK_DIR with input protein sequence (or .)
    224224    * FASTA_NAME   => name of input protein sequence file within $AF2_WORK_DIR/$FASTA_PATH
    225225    * USERNAME     => Username for job submission and email