script cleanup

- moved to scripts folder
- wrote README
- removed obsolete
- renamed properly

spongilla_mkdb.sh

-#!/bin/bash -ex
-
-SCRIPT="/g/arendt/npapadop/repos/spongfold/mkdb.sh"
-INPUT="/g/arendt/data/spongilla_singlecell_dataset/spongilla_lacustris_Trinity.fasta.transdecoder_70AA_mediumheader.pep"
-OUTPUT_DIR="/scratch/npapadop/Spongilla_lacustris_70AAcutoffTransDecoder/"
-DB_NAME="spongilla"
-
-sbatch ${SCRIPT} ${INPUT} ${OUTPUT_DIR} ${DB_NAME}
\ No newline at end of file

spongilla_pdb70.sh

-#!/bin/bash -ex
-
-SCRIPT="/g/arendt/npapadop/repos/spongfold/align.sh"
-QUERYDB="/scratch/npapadop/Spongilla_lacustris_70AAcutoffTransDecoder/spongilla"
-TARGETDB="/scratch/npapadop/PDB70/PDB70"
-RESULTDB="/scratch/npapadop/spongilla_pdb70/result"
-TMP="/scratch/npapadop/spongilla_pdb70/tmp"
-
-sbatch ${SCRIPT} ${QUERYDB} ${TARGETDB} ${RESULTDB} ${TMP}
\ No newline at end of file

spongilla_uniref100.sh

-#!/bin/bash -ex
-
-SCRIPT="/g/arendt/npapadop/repos/spongfold/align.sh"
-QUERY="/g/arendt/data/spongilla_singlecell_dataset/spongilla_lacustris_Trinity.fasta.transdecoder_70AA_mediumheader.pep"
-DBBASE="/scratch/npapadop"
-BASE="/scratch/npapadop"
-DB1="Uniref100/Uniref100"
-FILTER="1"
-
-sbatch ${SCRIPT} ${QUERY} ${DBBASE} ${BASE} ${DB1} ${FILTER}
\ No newline at end of file