Initializing nucleic acids...done.
Applying constraints...done.
Folding single strand...
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 98% [==================================================] -                     done.
Writing output ct file...done.
Single strand folding complete.
Initializing nucleic acids...done.
Applying SHAPE constraints...done.
Calculating free energies...done.
efn2 complete.
Converting CT file...CT file conversion complete.
/disk1/www/rails/humanrnamap/cli/./main.py:567: DeprecationWarning: Call to deprecated function (or staticmethod) VARNA. (Class has been renamed 'Structure')
  v = VARNA(structure=fold_dbn, sequence=seq)
Output file: /disk1/www/rails/humanrnamap/public/result/c5d20810-6d52-4850-9842-011fd4debf33/final_image/RUNX1_fold_1.svg

first - Elapsed time since the previous call: 0.00 seconds
first - Current memory usage: 157.94 MB
setup complete - Elapsed time since the previous call: 0.00 seconds
setup complete - Current memory usage: 157.94 MB
config complete - Elapsed time since the previous call: 0.00 seconds
config complete - Current memory usage: 157.94 MB
read annotations - Elapsed time since the previous call: 0.09 seconds
read annotations - Current memory usage: 171.43 MB
Based on canonical annotations, the following gene is in your area of interest: RUNX1(-)
write fasta - Elapsed time since the previous call: 0.13 seconds
write fasta - Current memory usage: 171.43 MB
Length of region: 86 nt.
100.0% of the region's A/C bases included in the filtered DMS dataset. Ideally, this number should be as high as possible for an experimenally-accurate prediction, and over 70% is recommended.
write dat - Elapsed time since the previous call: 0.18 seconds
write dat - Current memory usage: 175.03 MB
Running command: /disk1/www/rails/humanrnamap/cli/bin/Fold "/disk1/www/rails/humanrnamap/public/result/c5d20810-6d52-4850-9842-011fd4debf33/fasta/RUNX1.fasta" "/disk1/www/rails/humanrnamap/public/result/c5d20810-6d52-4850-9842-011fd4debf33/ct/RUNX1.ct" --SHAPE "RUNX1.dat"

fold - Elapsed time since the previous call: 0.09 seconds
fold - Current memory usage: 175.03 MB
Running command: /disk1/www/rails/humanrnamap/cli/bin/efn2 "/disk1/www/rails/humanrnamap/public/result/c5d20810-6d52-4850-9842-011fd4debf33/ct/RUNX1.ct" "/disk1/www/rails/humanrnamap/public/result/c5d20810-6d52-4850-9842-011fd4debf33/fold_FE/RUNX1.txt" -sh "RUNX1.dat"

efn2 - Elapsed time since the previous call: 0.50 seconds
efn2 - Current memory usage: 175.03 MB
This region has 1 predicted structures. 5 is the maximum structures visible on the web server. For up to 20 predictions per region, download and run the code locally.
Running command: /disk1/www/rails/humanrnamap/cli/bin/ct2dot "/disk1/www/rails/humanrnamap/public/result/c5d20810-6d52-4850-9842-011fd4debf33/ct/RUNX1.ct" 1 "/disk1/www/rails/humanrnamap/public/result/c5d20810-6d52-4850-9842-011fd4debf33/fold_dbn/RUNX1_temp1.dbn"

ct2dot - Elapsed time since the previous call: 0.02 seconds
ct2dot - Current memory usage: 175.03 MB
['java', '-cp', '/disk1/www/rails/humanrnamap/cli/bin/VARNAv3-93.jar', 'fr.orsay.lri.varna.applications.VARNAcmd', '-sequenceDBN', 'CGAUCAGUCCUACCAAUACCUGGGAUCCAUUGCCUCUCCUUCUGUGCACCCAGCAACGCCCAUUUCACCUGGACGUGCCAGCGGCA', '-structureDBN', '......((((((........)))))).....(((.......(((.((((((((...............))))..))))))).))).', '-o', '/disk1/www/rails/humanrnamap/public/result/c5d20810-6d52-4850-9842-011fd4debf33/final_image/RUNX1_fold_1.svg', '-title', 'RUNX1, -20.5 ± 0.9\n kcal/mol, AUC: 0.766', '-titleSize', '12', '-basesStyle1', 'fill=#ffffff', '-applyBasesStyle1on', '2,4,7,8,11,17,21,22,23,24,26,30,31,32,35,37,40,41,43,44,45,46,53,58,63,64,65,70,71,72,75,76,77,81,83,84', '-basesStyle2', 'fill=#00ffff', '-applyBasesStyle2on', '34,69,10,78,50,51,59,60', '-basesStyle3', 'fill=#ffff00', '-applyBasesStyle3on', '66,3,9,73,15,79,80,20,86,25,28,29,33,38,42,47,49,56,61,62', '-basesStyle4', 'fill=#ff0000', '-applyBasesStyle4on', '1,67,68,5,6,74,12,13,14,16,18,19,82,85,27,36,39,48,52,54,55,57']
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Text: 'RUNX1, -20.5 ± 0.9
 kcal/mol, AUC: 0.766', X: 231.71375857899966, Y: 232.63845282429557, Width: 142.5, Height: 23
Calculated bounding box: (4.75, 0.167081232827627, 601.1775171579993, 232.63845282429557)
Updated viewBox: -0.25 -4.832918767172373 606.4275171579993 242.47137159146794
Updated SVG: /disk1/www/rails/humanrnamap/public/result/c5d20810-6d52-4850-9842-011fd4debf33/final_image/RUNX1_fold_final_1.svg
Combined SVG saved as /disk1/www/rails/humanrnamap/public/result/c5d20810-6d52-4850-9842-011fd4debf33/final_image/RUNX1_fold_final_1.svg
