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#! /bin/bash |
| 2 |
|
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# mlovccf (make list of valid ccfs) |
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# |
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# Makes the list of valid CCFs. These are all CCFs, among those published since the |
| 6 |
# beginning of the project, that are required to process any ODF at a given date, |
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# typically the current date. This list will change with time as far as new |
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# CCFs are issued to deal with new calibration data and/or replace obsolete ones. |
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# |
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# To identify the set of CCFs required to process a given ODF is the job of task cifbuild. |
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# To make such identification, cifbuild needs only the start time of the observation. |
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# Therefore, if we provide a list of all observed ODFs at a given date together with their |
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# respective start time, we could compute all the CCFs required to process them. |
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# For such a moment, that list is the list of valid CCFs required to process |
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# any observed ODF. |
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# |
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# We need as input the list of all observed ODFs at a given date. |
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# This is obtained from the report of all observations that the XSA makes to CDS, |
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# xsaobslog.txt (http://nxsa.esac.esa.int/ftp_public/cfs_obslog/xsaobslog.txt). |
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# |
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# $Id: mlovccf,v 1.19 2017/01/10 16:43:39 ccflib Exp $ |
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|
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# Next two lines allow to submit this script to the grid |
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# request Bourne shell as shell for job |
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#$ -S /bin/bash |
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|
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adminmail="eduardo.ojero@sciops.esa.int" |
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|
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VALID_CCF="$HOME/processing_valid_ccf" |
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|
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mailfile="${VALID_CCF}/mailfile" |
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|
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host=`hostname | cut -d. -f1` |
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|
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now=`date +'%Y%m%d_%H%M'` |
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now_table=`date +'%Y-%m-%dT%H:%M:%S'` |
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|
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|
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# +++ Function mailnotify |
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# |
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# This function is used to notify adminmail on any issue while runnning this procedure |
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# |
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# Needs a subject as $1 and body as local file to be send. |
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|
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mailnotify () |
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{ |
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|
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[ "$#" -ne "2" ] && return |
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|
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subject=$1 |
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|
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bodyfile=$2 |
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|
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[ ! -f "${bodyfile}" ] && return |
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|
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echo ; echo "Sending message to ${adminmail} with subject ${subject}" ; echo |
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|
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mailx -v -s "${subject}" "${adminmail}" < ${bodyfile} |
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|
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} |
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|
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|
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|
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# +++ Function getxsaobslog |
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# |
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# We need to get the list of all observed ODFs at the current date. |
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# This is obtained from http://nxsa.esac.esa.int/ftp_public/cds_obslog/xsaobslog.txt. |
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|
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getxsaobslog () |
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{ |
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|
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XSAOBSURL="http://nxsa.esac.esa.int/ftp_public/cds_obslog/xsaobslog.txt" |
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|
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# Remove any xsaobslog.txt previously downloaded. |
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|
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[ -f "${VALID_CCF}/xsaobslog.txt" ] && rm -rf ${VALID_CCF}/xsaobslog.txt |
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|
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# Get the list latest list of ODFs available from nXSA server. |
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|
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wget --quiet ${XSAOBSURL} -O ${VALID_CCF}/xsaobslog.txt |
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|
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# Rename xsaobslog.txt to xsaobslog_${now}.txt just to have a reference |
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# of which list of ODFs was used to compute the list of valid CCFs. |
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|
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mv ${VALID_CCF}/xsaobslog.txt ${VALID_CCF}/xsaobslog_${now}.txt |
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|
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} |
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|
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|
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|
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# +++Function get_ccf_list to list on stdout the table of CCFs in a given CIF. |
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# |
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# Requires that Heasoft is initialised. Otherwise exits with error. |
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|
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get_ccf_list() |
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{ |
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[ -z "$1" ] && return |
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|
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cif_to_process="$1" |
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|
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noversion=`which fversion | grep -c no` |
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|
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if [ "${noversion}" != "0" ] ; then |
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echo "Error: Heasoft not initialised !" |
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[ -f "${mailfile}" ] && rm -rf ${mailfile} |
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echo "Running of fversion produced the following output:" >> $mailfile |
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echo "$noversion" >> $mailfile |
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mailnotify "mvloccf: Error: Heasoft not initialised!" $mailfile |
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rm ${mailfile} |
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exit |
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fi |
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|
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fdump ${cif_to_process} prhead=no showcol=no showrow=no page=no \ |
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columns="SCOPE TYPEID ISSUE" \ |
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rows=- STDOUT |
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} |
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|
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|
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|
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|
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# +++ Fill in the valid_constituents directory with the Valid CCF set |
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# |
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# The directory to be filled in is ${VALIDCONSTITUENTSDISR}. |
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# This directory is synchronized with the similar directory in the |
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# external ftp server. |
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# |
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# In addition to that, we also use this function to fill in the |
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# /ccf/valid directory available for users in the intranet. |
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|
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fillvalidccfdir() |
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{ |
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|
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[ -z "$1" ] && return |
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|
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validccflist=$1 |
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|
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if [ ! -f "${VALID_CCF}/${validccflist}" ] ; then |
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echo "Error: ${VALID_CCF}/${validccflist} not found - Abort!" |
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[ -f "${mailfile}" ] && rm -rf ${mailfile} |
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echo "The list of valid CCF ${VALID_CCF}/${validccflist} is not found" >> $mailfile |
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mailnotify "mvloccf: Error: ${VALID_CCF}/${validccflist} not found - Abort!" $mailfile |
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rm ${mailfile} |
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exit |
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fi |
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|
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VALIDCONSTITUENTSDIR="/home/ccflib/ftp-area/valid_constituents" |
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rm -rf ${VALIDCONSTITUENTSDIR}/* |
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|
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# This operation can only succeed because the subdir valid has enable the write permission |
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# for the group "sas" (g=rwx), provided that CCFs belong to sasbuild(5153):sas. |
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VALIDCCFDIRINTRANET="/ccf/valid" |
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rm -rf ${VALIDCCFDIRINTRANET}/* |
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|
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CONSTITUENTSDIR="/home/ccflib/ftp-area/constituents" |
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n=0 |
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while read ccf |
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do |
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n=$((n + 1)) |
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echo "$n cp -a ${CONSTITUENTSDIR}/${ccf} ${VALIDCONSTITUENTSDIR}/" |
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cp -a ${CONSTITUENTSDIR}/${ccf} ${VALIDCONSTITUENTSDIR}/ |
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echo "$n cp -a ${CONSTITUENTSDIR}/${ccf} ${VALIDCCFDIRINTRANET}/" |
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cp -a ${CONSTITUENTSDIR}/${ccf} ${VALIDCCFDIRINTRANET}/ |
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done < ${VALID_CCF}/${validccflist} |
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|
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} |
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|
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|
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# |
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# M a i n p r o g r a m |
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# |
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# 1. Get the list of all ODFs |
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|
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|
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xsaobslogsize="0" |
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|
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getxsaobslog |
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|
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xsaobslogsize=`stat --format=%s ${VALID_CCF}/xsaobslog_${now}.txt` |
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|
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if [ "$xsaobslogsize" = "0" ] ; then |
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echo "Error: Failure to download the XSA Obs. Log file - Abort" |
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[ -f "${mailfile}" ] && rm -rf ${mailfile} |
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echo "The XSA Obs. Log file has 0 size - Not downloaded?" >> $mailfile |
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echo "." >> $mailfile |
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mailnotify "mlovccf: Error: Failure to download the XSA Obs. Log file - Abort" "$mailfile" |
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rm ${mailfile} |
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exit |
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fi |
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|
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# |
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# 2. Initialises HEADAS and SAS |
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# |
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|
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# Defines SASBUILD_LOCAL depending on host. |
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# Then uses it to build up HEADAS and setup LD_LIBRARY_PATH accordingly. |
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|
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case "$host" in |
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sasbld01n|sasbld02n) |
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export SASBUILD_LOCAL="/sasbuild/local/${host}/GNU_CC_CXX_7.1" |
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;; |
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scigrid6|cn-*) |
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export SASBUILD_LOCAL="/sasbuild/local/sasbld02n/GNU_CC_CXX_7.1" |
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;; |
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*) echo "Error: Unsupported host $host" ; exit 1 ;; |
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esac |
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|
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export HEADAS=${SASBUILD_LOCAL}/headas/architecture |
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|
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headas_output="${VALID_CCF}/headas_output" |
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source $HEADAS/headas-init.sh > ${headas_output} 2>&1 |
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|
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# The next statement should not be necessary because the SAS initialisation |
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# provides under $SAS_DIR/libextra all the necessary libraries from GNU C/C++ |
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# which were required to build Heasoft. But, in order to make the HEADAS |
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# initialisation independent of the SAS initialisation, we set the |
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# LD_LIBRARY_PATH as it has to be to run Headas by itself without SAS been |
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# ready. |
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|
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export LD_LIBRARY_PATH=${LD_LIBRARY_PATH}:${SASBUILD_LOCAL}/gcc/lib64 |
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|
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|
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headas_ok=`cat ${headas_output}` |
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|
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if [ -n "${headas_ok}" ] ; then |
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echo "mlovccf: HEADAS initialisation failed with error" >> ${mailfile} |
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cat ${headas_output} >> ${mailfile} |
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mailnotify "mlovccf: HEADAS initilisation failed" ${mailfile} |
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rm ${headas_output} ${mailfile} |
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exit 1 |
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fi |
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|
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# To be able to mix several jobs on the same ccflib account |
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[ ! -d "${HOME}/pfiles/${host}" ] && mkdir ${HOME}/pfiles/${host} |
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export PFILES="${HOME}/pfiles/${host};${HEADAS}/syspfiles" |
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echo -n "HEADAS version: " |
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fversion |
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|
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# |
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# W a r n i n g o n S A S i n i t i a l i s a t i o n |
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# |
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# The SAS initialisation produced by setsas.sh sets SAS_CCFPATH to /ccf/pub. |
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# Hence, if we set SAS_CCFPATH before running setsas.sh, we will always |
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# use /ccf/pub as repository for CCF. This is right as long as /ccf/pub is in |
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# strict sync with /home/ccflib/ccf_ftp/constituents. But if this is not true, |
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# the resulting valid CCFs might be wrong. Therefore, we set it here explicitly. |
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# |
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|
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confsas_output="${VALID_CCF}/confsas_output" |
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/sas/bin/confsas > ${confsas_output} 2>&1 |
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confsas_ok=`cat ${confsas_output}` |
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|
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if [ -n "${confsas_ok}" ] ; then |
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echo "mlovccf: SAS initialization failed with error" >> ${mailfile} |
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cat ${confsas_output} >> ${mailfile} |
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mailnotify "mlovccf: SAS initialisation failed" ${mailfile} |
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rm ${confsas_output} ${mailfile} |
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exit 1 |
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fi |
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|
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source $HOME/setsas.sh 1> /dev/null |
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|
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# Re-sets SAS_CCFPATH |
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|
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export SAS_CCFPATH="/home/ccflib/ftp-area/constituents" |
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|
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echo "SAS Version: " |
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sasversion -V 1 |
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export SAS_VERBOSITY=0 |
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|
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|
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# 3. XMM_CALINDEX file from SAS_CCFPATH |
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|
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MIF=`ls -1 ${SAS_CCFPATH}/XMM_CALINDEX_*.CCF` |
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|
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# 4. For each OBDS ID registered in the XSA observations list, gets the start |
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# time of the observation. Then runs cifbuild to get the respective CIF. |
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# all_ccfs_${now}.txt is filled recursively on each iteration. |
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# Therefore we start with an empty file. The final list will be this one. |
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|
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# Output file : ${VALID_CCF}/all_ccfs_${now}.txt |
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|
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touch ${VALID_CCF}/all_ccfs_${now}.txt |
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|
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n=0 |
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|
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while read line |
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do |
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obsid=`echo $line | awk -F"|" '{print $2}'` |
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stime=`echo $line | awk -F"|" '{print $9}'` |
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stime=`echo $stime | tr " " "T"` |
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n=$((n+1)) |
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echo "($n) Processing $obsid $stime" ; echo |
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|
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# Run cifbuild |
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|
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cif_file=${VALID_CCF}/${obsid}.cif |
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|
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cifbuild --withmasterindexset='yes' \ |
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--masterindexset=${MIF} \ |
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--withobservationdate='yes' \ |
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--observationdate=${stime} \ |
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--analysisdate='now' \ |
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--calindexset=${cif_file} |
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|
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|
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# Gets the list of CCFs included in the CIF |
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|
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get_ccf_list "${cif_file}" > ${VALID_CCF}/${obsid}_ccfs.tmp |
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|
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while read line |
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do |
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[ "$line" = "" ] && continue |
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class=`echo $line | awk -F" " '{print $1"_"$2}'` |
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issue=`echo $line | awk -F" " '{print $3}'` |
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issue=`printf "%04d" ${issue}` |
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echo ${class}_${issue}.CCF >> ${VALID_CCF}/${obsid}_ccfs.txt |
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|
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done < ${VALID_CCF}/${obsid}_ccfs.tmp |
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|
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rm ${VALID_CCF}/${obsid}_ccfs.tmp |
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|
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mv ${VALID_CCF}/all_ccfs_${now}.txt ${VALID_CCF}/all_ccfs_${now}.tmp |
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|
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cat ${VALID_CCF}/${obsid}_ccfs.txt ${VALID_CCF}/all_ccfs_${now}.tmp | sort -u > ${VALID_CCF}/all_ccfs_${now}.txt |
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|
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comm -1 -3 --nocheck-order ${VALID_CCF}/all_ccfs_${now}.tmp ${VALID_CCF}/all_ccfs_${now}.txt > ${VALID_CCF}/diff_iteration_${n}.txt |
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|
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diffsize=`stat --format=%s ${VALID_CCF}/diff_iteration_${n}.txt` |
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|
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if [ "$diffsize" != "0" ] ; then |
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echo "CCF added in this iteration: " |
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cat ${VALID_CCF}/diff_iteration_${n}.txt |
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fi |
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|
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echo |
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echo "Number of valid CCFs found so far: "`cat ${VALID_CCF}/all_ccfs_${now}.txt | wc -l` ; echo |
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|
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rm ${VALID_CCF}/diff_iteration_${n}.txt |
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rm ${cif_file} |
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rm ${VALID_CCF}/${obsid}_ccfs.txt |
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rm ${VALID_CCF}/all_ccfs_${now}.tmp |
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|
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done < ${VALID_CCF}/xsaobslog_${now}.txt |
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|
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# 5. Make a table of classes and issues with the style "Pipeline Release Notes" |
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# To get a classification, we need first to obtain all available classes. |
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# |
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|
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|
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# Lists all CCF classes |
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|
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ccf_classes="${VALID_CCF}/ccf_classes.txt" |
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|
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while read line |
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do |
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class=`echo $line | awk -F"_" '{print $1"_"$2}'` |
| 357 |
echo $class >> ${ccf_classes} |
| 358 |
done < ${VALID_CCF}/all_ccfs_${now}.txt |
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|
| 360 |
cat ${ccf_classes} | sort -u > ${VALID_CCF}/kk.txt |
| 361 |
mv ${VALID_CCF}/kk.txt ${ccf_classes} |
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|
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|
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|
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# Output final file is named all_ccfs_${now}_table.txt |
| 366 |
|
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total_number_of_ccfs=0 |
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|
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all_ccfs_table="${VALID_CCF}/all_ccfs_${now}_table.txt" |
| 370 |
|
| 371 |
[ -f "${all_ccfs_table}" ] && rm ${all_ccfs_table} |
| 372 |
|
| 373 |
echo "Table of valid CCFs at $now_table" >> ${all_ccfs_table} |
| 374 |
echo >> ${all_ccfs_table} |
| 375 |
echo "|================================|=============|=======|" >> ${all_ccfs_table} |
| 376 |
echo "| Calibration File | Issue range | Count |" >> ${all_ccfs_table} |
| 377 |
echo "|================================|=============|=======|" >> ${all_ccfs_table} |
| 378 |
|
| 379 |
while read ccf_class |
| 380 |
do |
| 381 |
echo -n "Processing class $ccf_class ..." |
| 382 |
issues_file="${VALID_CCF}/ccf_issues_for_${ccf_class}.txt" |
| 383 |
[ -f "${issues_file}" ] && rm ${issues_file} |
| 384 |
while read line |
| 385 |
do |
| 386 |
class=`echo $line | awk -F"_" '{print $1"_"$2}'` |
| 387 |
[ "$class" != "$ccf_class" ] && continue |
| 388 |
issue=`echo $line | awk -F"_" '{print $3}' | cut -d. -f1` |
| 389 |
echo $issue >> ${issues_file} |
| 390 |
done < ${VALID_CCF}/all_ccfs_${now}.txt |
| 391 |
|
| 392 |
cat ${issues_file} | sort -u > kk.txt |
| 393 |
mv kk.txt ${issues_file} |
| 394 |
real_number_of_issues_for_this_class=`wc -l ${issues_file} | awk -F" " '{print $1}'` |
| 395 |
|
| 396 |
first_issue=`head -1 ${issues_file}` |
| 397 |
last_issue=`tail -1 ${issues_file}` |
| 398 |
|
| 399 |
li=$((10#$last_issue)) |
| 400 |
fi=$((10#$first_issue)) |
| 401 |
|
| 402 |
sequential_number_of_issues_for_this_class=$((li - fi + 1)) |
| 403 |
|
| 404 |
asterisk=" " |
| 405 |
[ "${real_number_of_issues_for_this_class}" -lt "${sequential_number_of_issues_for_this_class}" ] && asterisk="(*)" |
| 406 |
|
| 407 |
total_number_of_ccfs=$((real_number_of_issues_for_this_class + total_number_of_ccfs)) |
| 408 |
|
| 409 |
rn=$real_number_of_issues_for_this_class |
| 410 |
|
| 411 |
if [ "${first_issue}" != "${last_issue}" ] ; then |
| 412 |
if [ "$asterisk" = "(*)" ] ; then |
| 413 |
printf "| %-30s | %4s-%4s(*)| %4s |\n" ${ccf_class} ${first_issue} ${last_issue} ${rn} >> ${all_ccfs_table} |
| 414 |
else |
| 415 |
printf "| %-30s | %4s-%4s | %4s |\n" ${ccf_class} ${first_issue} ${last_issue} ${rn} >> ${all_ccfs_table} |
| 416 |
fi |
| 417 |
else |
| 418 |
printf "| %-30s | %4s | %4s |\n" ${ccf_class} ${first_issue} ${rn} >> ${all_ccfs_table} |
| 419 |
fi |
| 420 |
|
| 421 |
|
| 422 |
echo "done" |
| 423 |
done < ${ccf_classes} |
| 424 |
|
| 425 |
echo "|================================|=============|=======|" >> ${all_ccfs_table} |
| 426 |
echo >> ${all_ccfs_table} |
| 427 |
echo "(*): Incomplete range." >> ${all_ccfs_table} |
| 428 |
echo "" >> ${all_ccfs_table} |
| 429 |
echo "Total number of valid CCFs required : ${total_number_of_ccfs}" >> ${all_ccfs_table} |
| 430 |
rm ${VALID_CCF}/ccf_classes.txt |
| 431 |
rm ${VALID_CCF}/ccf_issues_for*.txt |
| 432 |
|
| 433 |
|
| 434 |
|
| 435 |
# 6. Fill in the Valid CCF Set dir with the proper CCFs |
| 436 |
|
| 437 |
fillvalidccfdir "all_ccfs_${now}.txt" |
| 438 |
|
| 439 |
[ -f "${mailfile}" ] && rm -rf ${mailfile} |
| 440 |
echo "Valid CCF Set successfully copied to ${VALIDCONSTITUENTSDIR}" >> $mailfile |
| 441 |
echo "Valid CCF Set successfully copied to ${VALIDCCFDIRINTRANET}" >> $mailfile |
| 442 |
mailnotify "mvloccf: Valid CCF Set created successfully" $mailfile |
| 443 |
rm ${mailfile} |
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