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automatically convert pedestal files

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This commit is contained in:
Dmitry Ozerov
2020-12-01 22:04:38 +01:00
committed by Data Backend account
parent 5dd111bde3
commit 78e31e0ef6
2 changed files with 282 additions and 0 deletions
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scripts/retrieve_detector_data.sh
+57
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@@ -55,6 +55,10 @@ case ${DETECTOR} in
NM=9
DET_CONFIG_FILE=/gpfs/photonics/swissfel/buffer/config/stream-JF02.json
;;
'JF04T01V01')
NM=1
DET_CONFIG_FILE=/gpfs/photonics/swissfel/buffer/config/stream-JF04.json
;;
'JF06T32V02')
NM=32
DET_CONFIG_FILE=/gpfs/photonics/swissfel/buffer/config/stream-JF06.json
@@ -67,6 +71,14 @@ case ${DETECTOR} in
NM=32
DET_CONFIG_FILE=/gpfs/photonics/swissfel/buffer/config/stream-JF07.json
;;
'JF09T01V01')
NM=1
DET_CONFIG_FILE=/gpfs/photonics/swissfel/buffer/config/stream-JF09.json
;;
'JF10T01V01')
NM=1
DET_CONFIG_FILE=/gpfs/photonics/swissfel/buffer/config/stream-JF10.json
;;
'JF13T01V01')
NM=1
DET_CONFIG_FILE=/gpfs/photonics/swissfel/buffer/config/stream-JF13.json
@@ -141,6 +153,51 @@ echo $((date3-date2)) | awk '{print int($1/60)":"int($1%60)}'
if [ ${JF_CONVERSION} == 0 ]
then
echo "File is written in raw format, no compression"
dir_name=`dirname ${OUTFILE_RAW}`
base_name=`basename ${dir_name}`
if [ ${base_name} == "JF_pedestals" ]
then
echo "Pedestal run will make conversion"
export PATH=/home/dbe/miniconda3/bin:$PATH
source /home/dbe/miniconda3/etc/profile.d/conda.sh
conda deactivate
conda activate sf-daq
if [ ${DETECTOR} == "JF07T32V01" ]
then
time python /home/dbe/git/sf_daq_buffer/scripts/jungfrau_create_pedestals.py --filename ${OUTFILE_RAW} --directory ${dir_name} --verbosity DEBUG --add_pixel_mask /sf/bernina/config/jungfrau/pixel_mask/JF07T32V01/pixel_mask_13_full.h5
elif [ ${DETECTOR} == "JF03T01V02" ]
then
time python /home/dbe/git/sf_daq_buffer/scripts/jungfrau_create_pedestals.py --filename ${OUTFILE_RAW} --directory ${dir_name} --verbosity DEBUG --add_pixel_mask /sf/bernina/config/jungfrau/pixel_mask/JF03T01V02/pixel_mask_half_chip.h5
elif [ ${DETECTOR} == "JF02T09V02" ]
then
time python /home/dbe/git/sf_daq_buffer/scripts/jungfrau_create_pedestals.py --filename ${OUTFILE_RAW} --directory ${dir_name} --verbosity DEBUG --number_bad_modules=1
elif [ ${DETECTOR} == "JF06T08V02" ]
then
time python /home/dbe/git/sf_daq_buffer/scripts/jungfrau_create_pedestals.py --filename ${OUTFILE_RAW} --directory ${dir_name} --verbosity DEBUG --add_pixel_mask /sf/alvra/config/jungfrau/pixel_mask/JF06T08V01/mask_2lines_module3.h5
# elif [ ${DETECTOR} == "JF06T32V02" ]
# then
# time python /home/dbe/git/sf_daq_buffer/scripts/jungfrau_create_pedestals.py --filename ${OUTFILE_RAW} --directory ${dir_name} --verbosity DEBUG --add_pixel_mask /sf/alvra/config/jungfrau/pixel_mask/JF06T32V02/mask_noise_in_28.h5
elif [ ${DETECTOR} == "JF13T01V01" ]
then
time python /home/dbe/git/sf_daq_buffer/scripts/jungfrau_create_pedestals.py --filename ${OUTFILE_RAW} --directory ${dir_name} --verbosity DEBUG --add_pixel_mask /sf/bernina/config/jungfrau/pixel_mask/JF13T01V01/pixel_mask_bad_rb_22.09.2020.h5
elif [ ${DETECTOR} == "JF11T04V01" ]
then
time python /home/dbe/git/sf_daq_buffer/scripts/jungfrau_create_pedestals.py --filename ${OUTFILE_RAW} --directory ${dir_name} --verbosity DEBUG --number_bad_modules=2
elif [ ${DETECTOR} == "JF11T04V01" ]
then
time python /home/dbe/git/sf_daq_buffer/scripts/jungfrau_create_pedestals.py --filename ${OUTFILE_RAW} --directory ${dir_name} --verbosity DEBUG --number_bad_modules=1
else
time python /home/dbe/git/sf_daq_buffer/scripts/jungfrau_create_pedestals.py --filename ${OUTFILE_RAW} --directory ${dir_name} --verbosity DEBUG
fi
fi
else
echo "Will call compression/convertion ${OUTFILE_RAW} --> ${OUTFILE}"