Initializing nucleic acids...done.
Applying constraints...done.
Folding single strand...
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 95% [================================================  ] |                     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/2368f716-cdc7-46ff-994f-326a4ab182cc/final_image/RUNX1_fold_1.svg

first - Elapsed time since the previous call: 0.00 seconds
first - Current memory usage: 158.27 MB
setup complete - Elapsed time since the previous call: 0.00 seconds
setup complete - Current memory usage: 158.27 MB
config complete - Elapsed time since the previous call: 0.00 seconds
config complete - Current memory usage: 158.27 MB
read annotations - Elapsed time since the previous call: 0.09 seconds
read annotations - Current memory usage: 171.79 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: 171.79 MB
Length of region: 100 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: 0.20 seconds
write dat - Current memory usage: 175.14 MB
Running command: /disk1/www/rails/humanrnamap/cli/bin/Fold "/disk1/www/rails/humanrnamap/public/result/2368f716-cdc7-46ff-994f-326a4ab182cc/fasta/RUNX1.fasta" "/disk1/www/rails/humanrnamap/public/result/2368f716-cdc7-46ff-994f-326a4ab182cc/ct/RUNX1.ct" --SHAPE "RUNX1.dat"

fold - Elapsed time since the previous call: 0.13 seconds
fold - Current memory usage: 175.14 MB
Running command: /disk1/www/rails/humanrnamap/cli/bin/efn2 "/disk1/www/rails/humanrnamap/public/result/2368f716-cdc7-46ff-994f-326a4ab182cc/ct/RUNX1.ct" "/disk1/www/rails/humanrnamap/public/result/2368f716-cdc7-46ff-994f-326a4ab182cc/fold_FE/RUNX1.txt" -sh "RUNX1.dat"

efn2 - Elapsed time since the previous call: 0.41 seconds
efn2 - Current memory usage: 175.14 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/2368f716-cdc7-46ff-994f-326a4ab182cc/ct/RUNX1.ct" 1 "/disk1/www/rails/humanrnamap/public/result/2368f716-cdc7-46ff-994f-326a4ab182cc/fold_dbn/RUNX1_temp1.dbn"

ct2dot - Elapsed time since the previous call: 0.01 seconds
ct2dot - Current memory usage: 175.14 MB
['java', '-cp', '/disk1/www/rails/humanrnamap/cli/bin/VARNAv3-93.jar', 'fr.orsay.lri.varna.applications.VARNAcmd', '-sequenceDBN', 'ACACAUGCAGUAGCACUUUGGUAAGAGUUAAAGAGUAAAGCAGCUUAUGUUGUCAGGUCGUUCUUAUCUAGAGAAGAGCUAUAGCAGAUCUCGGACAAAC', '-structureDBN', '.....(((.(((((.((((((((((((.....((.....(((((....)))))....)).))))))))....)))).))))).)))..............', '-o', '/disk1/www/rails/humanrnamap/public/result/2368f716-cdc7-46ff-994f-326a4ab182cc/final_image/RUNX1_fold_1.svg', '-title', 'RUNX1, -16.0 ± 1.7\n kcal/mol, AUC: 0.45', '-titleSize', '12', '-basesStyle1', 'fill=#ffffff', '-applyBasesStyle1on', '6,7,10,11,13,17,18,19,20,21,22,25,27,28,29,33,35,36,40,43,45,46,48,49,50,51,52,53,56,57,58,60,61,62,64,65,67,69,71,73,76,78,80,82,84,87,89,91,93,94', '-basesStyle2', 'fill=#00ffff', '-applyBasesStyle2on', '1,2,66,37,5,70,26', '-basesStyle3', 'fill=#ffff00', '-applyBasesStyle3on', '3,4,8,75,77,79,85,86,23,24,30,95,32,97,34,98,99,38,42,47,55', '-basesStyle4', 'fill=#ff0000', '-applyBasesStyle4on', '68,72,9,74,12,14,15,16,81,83,88,90,92,31,96,100,39,41,44,54,59,63']
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Text: 'RUNX1, -16.0 ± 1.7
 kcal/mol, AUC: 0.45', X: 195.1955654962128, Y: 604.5604743100321, Width: 133.5, Height: 23
Calculated bounding box: (4.75, 5.0, 527.3911309924256, 604.5604743100321)
Updated viewBox: -0.25 0.0 532.6411309924256 609.5604743100321
Updated SVG: /disk1/www/rails/humanrnamap/public/result/2368f716-cdc7-46ff-994f-326a4ab182cc/final_image/RUNX1_fold_final_1.svg
Combined SVG saved as /disk1/www/rails/humanrnamap/public/result/2368f716-cdc7-46ff-994f-326a4ab182cc/final_image/RUNX1_fold_final_1.svg
