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/59a086c8-3c55-4318-8376-22236d8bc43d/final_image/TNRC18_fold_1.svg

first - Elapsed time since the previous call: 0.00 seconds
first - Current memory usage: 159.67 MB
setup complete - Elapsed time since the previous call: 0.00 seconds
setup complete - Current memory usage: 159.67 MB
config complete - Elapsed time since the previous call: 0.00 seconds
config complete - Current memory usage: 159.67 MB
read annotations - Elapsed time since the previous call: 0.09 seconds
read annotations - Current memory usage: 173.32 MB
Based on canonical annotations, the following gene is in your area of interest: TNRC18(-)
write fasta - Elapsed time since the previous call: 0.42 seconds
write fasta - Current memory usage: 173.32 MB
Length of region: 71 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: 176.70 MB
Running command: /disk1/www/rails/humanrnamap/cli/bin/Fold "/disk1/www/rails/humanrnamap/public/result/59a086c8-3c55-4318-8376-22236d8bc43d/fasta/TNRC18.fasta" "/disk1/www/rails/humanrnamap/public/result/59a086c8-3c55-4318-8376-22236d8bc43d/ct/TNRC18.ct" --SHAPE "TNRC18.dat"

fold - Elapsed time since the previous call: 0.08 seconds
fold - Current memory usage: 176.70 MB
Running command: /disk1/www/rails/humanrnamap/cli/bin/efn2 "/disk1/www/rails/humanrnamap/public/result/59a086c8-3c55-4318-8376-22236d8bc43d/ct/TNRC18.ct" "/disk1/www/rails/humanrnamap/public/result/59a086c8-3c55-4318-8376-22236d8bc43d/fold_FE/TNRC18.txt" -sh "TNRC18.dat"

efn2 - Elapsed time since the previous call: 0.41 seconds
efn2 - Current memory usage: 176.70 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/59a086c8-3c55-4318-8376-22236d8bc43d/ct/TNRC18.ct" 1 "/disk1/www/rails/humanrnamap/public/result/59a086c8-3c55-4318-8376-22236d8bc43d/fold_dbn/TNRC18_temp1.dbn"

ct2dot - Elapsed time since the previous call: 0.02 seconds
ct2dot - Current memory usage: 176.70 MB
['java', '-cp', '/disk1/www/rails/humanrnamap/cli/bin/VARNAv3-93.jar', 'fr.orsay.lri.varna.applications.VARNAcmd', '-sequenceDBN', 'CUAGCACCGGCUUCACCGGCCUCCCAGUCCCCAGCACACCCCCCGCCCACCCCACCAAGUGUACUGUACUC', '-structureDBN', '......((((.....))))............(((.((((...................)))).))).....', '-o', '/disk1/www/rails/humanrnamap/public/result/59a086c8-3c55-4318-8376-22236d8bc43d/final_image/TNRC18_fold_1.svg', '-title', 'TNRC18, -8.4 ± 0.6\n kcal/mol, AUC: 0.483', '-titleSize', '12', '-basesStyle1', 'fill=#ffffff', '-applyBasesStyle1on', '65,2,66,4,67,70,9,10,12,13,18,19,22,27,28,34,45,59,60,61,62', '-basesStyle2', 'fill=#00ffff', '-applyBasesStyle2on', '3,8,40,47,49,51,52,54,23,29,30', '-basesStyle3', 'fill=#ffff00', '-applyBasesStyle3on', '1,5,7,71,11,16,17,21,24,31,33,36,38,41,50,58', '-basesStyle4', 'fill=#ff0000', '-applyBasesStyle4on', '64,68,69,6,14,15,20,25,26,32,35,37,39,42,43,44,46,48,53,55,56,57,63']
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Text: '71', X: 486.0, Y: 297.0905745452809, Width: 18.0, Height: 8
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Text: 'TNRC18, -8.4 ± 0.6
 kcal/mol, AUC: 0.483', X: 181.25, Y: 309.8905745452809, Width: 142.5, Height: 23
Calculated bounding box: (4.75, 0.0, 504.0, 309.8905745452809)
Updated viewBox: -0.25 -5.0 509.25 319.8905745452809
Updated SVG: /disk1/www/rails/humanrnamap/public/result/59a086c8-3c55-4318-8376-22236d8bc43d/final_image/TNRC18_fold_final_1.svg
Combined SVG saved as /disk1/www/rails/humanrnamap/public/result/59a086c8-3c55-4318-8376-22236d8bc43d/final_image/TNRC18_fold_final_1.svg
