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#!/bin/sh |
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# |
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# Usage: ./mklinks.sh [RELEASEPATH] [BASEPATH] |
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# Create links in the RELEASEPATH directory that points |
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# to the real file in some other earlier release. |
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# The current directory is used by default. |
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# If BASEPATH is specified only links that have a corresponding |
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# match in BASEPATH are created |
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# |
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<<RELEASEINFO>> |
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|
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RELEASEPATH=${1-.} |
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BASEPATH=${2} |
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|
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NUMLINKS=<<NUMLINKS>> |
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NCREATED=0 |
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NCHECKED=0 |
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|
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if [ -z "${BASEPATH}" ]; then |
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# BASEPATH was not set -- A full release is created in RELEASEPATH |
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echo "Creating ${NUMLINKS} links to existing files" |
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else |
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echo "Creating up to ${NUMLINKS} links in '${RELEASEPATH}' if they exist in '${BASEPATH}'" |
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fi |
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|
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# Creates a link in RELEASEPATH |
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# $1 = The link to create (for example, /S000001/l.r.m.c.lib.g/S000001.l.r.m.c.lib.g_R1.fastq.gz) |
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# $2 = Relative path to reach the actual file |
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# (for example, ../../../1.0/S000001/l.r.m.c.lib.g/S000001.l.r.m.c.lib.g_R1.fastq.gz) |
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function createLink { |
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NCHECKED=$(( ${NCHECKED} + 1 )) |
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if [[ -z "${BASEPATH}" || -f "${BASEPATH}${1}" ]]; then |
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echo "[${NCHECKED}/${NUMLINKS}] ${RELEASEPATH}${1}" |
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ln -s $2 ${RELEASEPATH}$1 |
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NCREATED=$(( ${NCREATED} + 1 )) |
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fi |
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} |
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|
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<<SCRIPT>> |
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|
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echo Done: ${NCREATED} links created |
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