Initializing nucleic acids...done.
Applying constraints...done.
Folding single strand...
  0% [=                                                 ] /                     
  6% [====                                              ] -                     
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 20% [===========                                       ] |                     
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 40% [=====================                             ] \                     
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 87% [============================================      ] -                     
 94% [================================================  ] \                     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/a865bdda-6ee9-49ed-91d7-cc757a5dd4b1/final_image/TGOLN2_fold_1.svg

first - Elapsed time since the previous call: 0.00 seconds
first - Current memory usage: 157.80 MB
setup complete - Elapsed time since the previous call: 0.00 seconds
setup complete - Current memory usage: 157.80 MB
config complete - Elapsed time since the previous call: 0.00 seconds
config complete - Current memory usage: 157.80 MB
read annotations - Elapsed time since the previous call: 0.09 seconds
read annotations - Current memory usage: 171.36 MB
Based on canonical annotations, the following gene is in your area of interest: TGOLN2(-)
write fasta - Elapsed time since the previous call: 0.78 seconds
write fasta - Current memory usage: 171.36 MB
Length of region: 74 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: 0.22 seconds
write dat - Current memory usage: 174.62 MB
Running command: /disk1/www/rails/humanrnamap/cli/bin/Fold "/disk1/www/rails/humanrnamap/public/result/a865bdda-6ee9-49ed-91d7-cc757a5dd4b1/fasta/TGOLN2.fasta" "/disk1/www/rails/humanrnamap/public/result/a865bdda-6ee9-49ed-91d7-cc757a5dd4b1/ct/TGOLN2.ct" --SHAPE "TGOLN2.dat"

fold - Elapsed time since the previous call: 0.08 seconds
fold - Current memory usage: 174.62 MB
Running command: /disk1/www/rails/humanrnamap/cli/bin/efn2 "/disk1/www/rails/humanrnamap/public/result/a865bdda-6ee9-49ed-91d7-cc757a5dd4b1/ct/TGOLN2.ct" "/disk1/www/rails/humanrnamap/public/result/a865bdda-6ee9-49ed-91d7-cc757a5dd4b1/fold_FE/TGOLN2.txt" -sh "TGOLN2.dat"

efn2 - Elapsed time since the previous call: 0.40 seconds
efn2 - Current memory usage: 174.62 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/a865bdda-6ee9-49ed-91d7-cc757a5dd4b1/ct/TGOLN2.ct" 1 "/disk1/www/rails/humanrnamap/public/result/a865bdda-6ee9-49ed-91d7-cc757a5dd4b1/fold_dbn/TGOLN2_temp1.dbn"

ct2dot - Elapsed time since the previous call: 0.01 seconds
ct2dot - Current memory usage: 174.62 MB
['java', '-cp', '/disk1/www/rails/humanrnamap/cli/bin/VARNAv3-93.jar', 'fr.orsay.lri.varna.applications.VARNAcmd', '-sequenceDBN', 'CGGAGCCGCAGACUCCAAAAGACAGCCCUAGCAAGUCGAGUGCGGAGGCGCAGACCCCAGAAGACACCCCCAAC', '-structureDBN', '.((((.......))))..................(((..((((....)))).)))...................', '-o', '/disk1/www/rails/humanrnamap/public/result/a865bdda-6ee9-49ed-91d7-cc757a5dd4b1/final_image/TGOLN2_fold_1.svg', '-title', 'TGOLN2, -12.6 ± 0.7\n kcal/mol, AUC: 0.638', '-titleSize', '12', '-basesStyle1', 'fill=#ffffff', '-applyBasesStyle1on', '2,3,5,8,11,14,21,25,29,31,35,36,38,40,41,42,44,45,47,48,50,53,60,63', '-basesStyle2', 'fill=#00ffff', '-applyBasesStyle2on', '66,67,68,69,55,56,13', '-basesStyle3', 'fill=#ffff00', '-applyBasesStyle3on', '1,65,4,6,7,43,12,46,15,49,18,57,27,28,62', '-basesStyle4', 'fill=#ff0000', '-applyBasesStyle4on', '64,70,71,72,9,10,73,74,16,17,19,20,22,23,24,26,30,32,33,34,37,39,51,52,54,58,59,61']
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Text: 'TGOLN2, -12.6 ± 0.7
 kcal/mol, AUC: 0.638', X: 312.5, Y: 211.9310768958209, Width: 142.5, Height: 23
Calculated bounding box: (4.75, 5.0, 766.5, 211.9310768958209)
Updated viewBox: -0.25 0.0 771.75 216.9310768958209
Updated SVG: /disk1/www/rails/humanrnamap/public/result/a865bdda-6ee9-49ed-91d7-cc757a5dd4b1/final_image/TGOLN2_fold_final_1.svg
Combined SVG saved as /disk1/www/rails/humanrnamap/public/result/a865bdda-6ee9-49ed-91d7-cc757a5dd4b1/final_image/TGOLN2_fold_final_1.svg
