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small modifications for the luke cluster

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Former-commit-id: 55a83611220f824a0efdb1267816f98df984152e
Former-commit-id: e01bf6440c2981904f31807766e9e48aea8b18c1
This commit is contained in:
Eric Coissac
2015-11-09 15:27:32 +01:00
parent 8b27f23a8e
commit ae703c70d6
3 changed files with 4 additions and 3 deletions
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1
detectors/normalize/lib/lookforIR.lib.sh
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@ -26,6 +26,7 @@ function lookForIR {
sort -nk 2 > ${MATCHES} sort -nk 2 > ${MATCHES}
loginfo "Done" loginfo "Done"
loginfo "Looking for long inverted repeats..." loginfo "Looking for long inverted repeats..."
repseek -c -p 0.001 -i ${QUERY} 2>> /dev/null > ${REPEATS} repseek -c -p 0.001 -i ${QUERY} 2>> /dev/null > ${REPEATS}
loginfo " --> $(wc -l ${REPEATS} | awk '{print $1}') repeats identified" loginfo " --> $(wc -l ${REPEATS} | awk '{print $1}') repeats identified"

2
scripts/bash_init.sh
View File

@ -19,7 +19,7 @@ function getAbsolutePath {
# Manage temp directory # Manage temp directory
function pushTmpDir { function pushTmpDir {
TMP_DIR=$(mktemp -d -t "$1_proc_$$_") TMP_DIR=$(mktemp -d -t "$1_proc_$$_XXXXXX")
pushd $TMP_DIR >& /dev/null pushd $TMP_DIR >& /dev/null
TMP_DIR_STACK="$TMP_DIR $TMP_DIR_STACK" TMP_DIR_STACK="$TMP_DIR $TMP_DIR_STACK"
logdebug "Pushing temp directory $TMP_DIR" logdebug "Pushing temp directory $TMP_DIR"