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CDS detector added

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Former-commit-id: a72f30f90d22cc3c7ff6059e0254e47911bb5af1
Former-commit-id: db0264bdbe5136b6e6dc44e4788175a257439643
This commit is contained in:
alain viari
2015-11-08 14:28:57 +01:00
parent 8dab2d56b2
commit efb9949075
17 changed files with 62 additions and 74 deletions
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8
detectors/trna/bin/go_trna.sh
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@ -5,7 +5,7 @@
#========================================================================================
#
# Annotate tRNA based on the Aragorn software predictions.
#
# go_trna.sh <FASTAFILE>
#
# - <FASTAFILE> : The fasta file containing the genome to annotate
@ -14,10 +14,10 @@
#
#========================================================================================
# -- CAUTION -- Works as long than the script
# -- CAUTION -- Works as long as the script
# is not called through a symlink
SCRIPT_DIR="$(dirname ${BASH_SOURCE[0]})"
source "${SCRIPT_DIR}/../../../scripts/bash_init.sh"
THIS_DIR="$(dirname ${BASH_SOURCE[0]})"
source "${THIS_DIR}/../../../scripts/bash_init.sh"
pushTmpDir ORG.trna

4
detectors/trna/tools/buildCAURefDB.sh
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@ -6,8 +6,8 @@
# -- CAUTION -- Works as long than the script
# is not called through a symlink
SCRIPT_DIR="$(dirname ${BASH_SOURCE[0]})"
source "${SCRIPT_DIR}/../../../scripts/bash_init.sh"
THIS_DIR="$(dirname ${BASH_SOURCE[0]})"
source "${THIS_DIR}/../../../scripts/bash_init.sh"
function fasta1li {

4
detectors/trna/tools/extract_refCAUtRNA.sh
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@ -6,8 +6,8 @@
# -- CAUTION -- Works as long than the script
# is not called through a symlink
SCRIPT_DIR="$(dirname ${BASH_SOURCE[0]})"
source "${SCRIPT_DIR}/../../../scripts/bash_init.sh"
THIS_DIR="$(dirname ${BASH_SOURCE[0]})"
source "${THIS_DIR}/../../../scripts/bash_init.sh"
function taxid {
egrep '/db_xref="taxon:[0-9]+"' $1 | \