Initializing nucleic acids...done.
Applying constraints...done.
Folding single strand...
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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/f5c05ebf-8712-4c40-a42c-879fe671cc76/final_image/TNRC18_fold_1.svg

first - Elapsed time since the previous call: 0.00 seconds
first - Current memory usage: 159.34 MB
setup complete - Elapsed time since the previous call: 0.00 seconds
setup complete - Current memory usage: 159.34 MB
config complete - Elapsed time since the previous call: 0.00 seconds
config complete - Current memory usage: 159.34 MB
read annotations - Elapsed time since the previous call: 0.09 seconds
read annotations - Current memory usage: 173.03 MB
Based on canonical annotations, the following gene is in your area of interest: TNRC18(-)
write fasta - Elapsed time since the previous call: 0.86 seconds
write fasta - Current memory usage: 173.03 MB
Length of region: 88 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: 0.19 seconds
write dat - Current memory usage: 176.38 MB
Running command: /disk1/www/rails/humanrnamap/cli/bin/Fold "/disk1/www/rails/humanrnamap/public/result/f5c05ebf-8712-4c40-a42c-879fe671cc76/fasta/TNRC18.fasta" "/disk1/www/rails/humanrnamap/public/result/f5c05ebf-8712-4c40-a42c-879fe671cc76/ct/TNRC18.ct" --SHAPE "TNRC18.dat"

fold - Elapsed time since the previous call: 0.09 seconds
fold - Current memory usage: 176.38 MB
Running command: /disk1/www/rails/humanrnamap/cli/bin/efn2 "/disk1/www/rails/humanrnamap/public/result/f5c05ebf-8712-4c40-a42c-879fe671cc76/ct/TNRC18.ct" "/disk1/www/rails/humanrnamap/public/result/f5c05ebf-8712-4c40-a42c-879fe671cc76/fold_FE/TNRC18.txt" -sh "TNRC18.dat"

efn2 - Elapsed time since the previous call: 0.44 seconds
efn2 - Current memory usage: 176.38 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/f5c05ebf-8712-4c40-a42c-879fe671cc76/ct/TNRC18.ct" 1 "/disk1/www/rails/humanrnamap/public/result/f5c05ebf-8712-4c40-a42c-879fe671cc76/fold_dbn/TNRC18_temp1.dbn"

ct2dot - Elapsed time since the previous call: 0.02 seconds
ct2dot - Current memory usage: 176.38 MB
['java', '-cp', '/disk1/www/rails/humanrnamap/cli/bin/VARNAv3-93.jar', 'fr.orsay.lri.varna.applications.VARNAcmd', '-sequenceDBN', 'CGCCAGCUCCCUGACCGCUGCCAAAAGGAGCAAAGCCAAGGCCAAAGGGAAGGAGGUGAAGAAGGAGAACCGCGGCAAGGGGGGUGCC', '-structureDBN', '.((.(.((((((..((((.((........))....((....((....))..)).(((...........)))))))..)))))).))).', '-o', '/disk1/www/rails/humanrnamap/public/result/f5c05ebf-8712-4c40-a42c-879fe671cc76/final_image/TNRC18_fold_1.svg', '-title', 'TNRC18, -26.4 ± 1.1\n kcal/mol, AUC: 0.75', '-titleSize', '12', '-basesStyle1', 'fill=#ffffff', '-applyBasesStyle1on', '2,6,8,12,13,17,19,20,27,28,30,35,40,41,47,48,49,52,53,55,56,57,58,61,64,65,67,72,74,75,79,80,81,82,83,84,85,86', '-basesStyle2', 'fill=#00ffff', '-applyBasesStyle2on', '7,71,73,42,11,76,18,22,87,88', '-basesStyle3', 'fill=#ffff00', '-applyBasesStyle3on', '66,4,5,70,9,10,77,16,21,23,29,31,34,36,37,43,50', '-basesStyle4', 'fill=#ff0000', '-applyBasesStyle4on', '1,3,68,69,14,15,78,24,25,26,32,33,38,39,44,45,46,51,54,59,60,62,63']
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Text: 'TNRC18, -26.4 ± 1.1
 kcal/mol, AUC: 0.75', X: 105.4124964991409, Y: 433.83354212850185, Width: 136.5, Height: 23
Calculated bounding box: (4.75, 0.0, 342.5749929982818, 433.83354212850185)
Updated viewBox: -0.25 -5.0 347.8249929982818 443.83354212850185
Updated SVG: /disk1/www/rails/humanrnamap/public/result/f5c05ebf-8712-4c40-a42c-879fe671cc76/final_image/TNRC18_fold_final_1.svg
Combined SVG saved as /disk1/www/rails/humanrnamap/public/result/f5c05ebf-8712-4c40-a42c-879fe671cc76/final_image/TNRC18_fold_final_1.svg
