MergeLysozyme.csh

$ vi bt_allmerge.csh
#!/bin/csh -f

#setting trial number that is not yet used by either run
set trial=${13}
set datadir1 = /reg/d/psdm/cxi/cxi84914/scratch/$USER/results/e239
set datadir2 = /reg/d/psdm/cxi/cxi84914/scratch/$USER/results/e240
set runs1 = 27, 28, 29, 31
set runs2 = 3, 4, 5 ,6, 7, 8, 9, 10, 12, 14, 15, 16, 17 , 18 , 19 , 21, 24, 25, 26, 27, 28, 29, 30, 32, 33, 34, 35, 36, 37, 38, 39, 40
set datastring1= `python -c "print ' '.join(['data=${datadir1}/r%04d/${trial}/integration'%i for i in [${runs}]])"`
set datastring2= `python -c "print ' '.join(['data=${datadir2}/r%04d/${trial}/integration'%i for i in [${runs}]])"`
set tag = last_BT_${trial}

set effective_params = “d_min=1.8" \
output.n_bins=10 \
${datastring1} \
${datastring2} \
target_unit_cell=79,79,38,90,90,90 \
target_space_group=P43212 \
nproc=16 \
merge_anomalous=True \
merging.refine_G_Imodel=True\
plot_single_index_histograms=False \
raw_data.sdfac_auto=True \
mysql.runtag=${tag} \
mysql.passwd=terp888 \
mysql.user=tara \
mysql.database=xfelnks \
scaling.mtz_file="Gd-Lysozyme.mtz" \
scaling.show_plots=True \
scaling.algorithm=mark1 \
scaling.log_cutoff=3. \
scaling.mtz_column_F=f-obs \
set_average_unit_cell=True \
rescale_with_average_cell=True \
output.prefix=${tag}”

cxi.merge ${effective_params}
cxi.xmerge ${effective_params}

$ ./bt_allmerge.csh 001