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/d0f90d64-7dd0-4c25-8648-fc97459c2b19/final_image/TGOLN2_fold_1.svg

first - Elapsed time since the previous call: 0.00 seconds
first - Current memory usage: 157.55 MB
setup complete - Elapsed time since the previous call: 0.00 seconds
setup complete - Current memory usage: 157.55 MB
config complete - Elapsed time since the previous call: 0.00 seconds
config complete - Current memory usage: 157.55 MB
read annotations - Elapsed time since the previous call: 0.09 seconds
read annotations - Current memory usage: 171.13 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: 171.13 MB
Length of region: 93 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: 174.50 MB
Running command: /disk1/www/rails/humanrnamap/cli/bin/Fold "/disk1/www/rails/humanrnamap/public/result/d0f90d64-7dd0-4c25-8648-fc97459c2b19/fasta/TGOLN2.fasta" "/disk1/www/rails/humanrnamap/public/result/d0f90d64-7dd0-4c25-8648-fc97459c2b19/ct/TGOLN2.ct" --SHAPE "TGOLN2.dat"

fold - Elapsed time since the previous call: 0.11 seconds
fold - Current memory usage: 174.50 MB
Running command: /disk1/www/rails/humanrnamap/cli/bin/efn2 "/disk1/www/rails/humanrnamap/public/result/d0f90d64-7dd0-4c25-8648-fc97459c2b19/ct/TGOLN2.ct" "/disk1/www/rails/humanrnamap/public/result/d0f90d64-7dd0-4c25-8648-fc97459c2b19/fold_FE/TGOLN2.txt" -sh "TGOLN2.dat"

efn2 - Elapsed time since the previous call: 0.42 seconds
efn2 - Current memory usage: 174.50 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/d0f90d64-7dd0-4c25-8648-fc97459c2b19/ct/TGOLN2.ct" 1 "/disk1/www/rails/humanrnamap/public/result/d0f90d64-7dd0-4c25-8648-fc97459c2b19/fold_dbn/TGOLN2_temp1.dbn"

ct2dot - Elapsed time since the previous call: 0.02 seconds
ct2dot - Current memory usage: 174.50 MB
['java', '-cp', '/disk1/www/rails/humanrnamap/cli/bin/VARNAv3-93.jar', 'fr.orsay.lri.varna.applications.VARNAcmd', '-sequenceDBN', 'CCAAAGAAGAGAAAGAAAAGAUGUCCGGUUCUGCCUCCAGUGAGAACCGUGAAGGGACACUUUCGGAUUCCACGGGUAGCGAGAAGGAUGACC', '-structureDBN', '......................((((..(((.((..((.(((.((((((.((((.....))))))).)))))).))..)))))..))))....', '-o', '/disk1/www/rails/humanrnamap/public/result/d0f90d64-7dd0-4c25-8648-fc97459c2b19/final_image/TGOLN2_fold_1.svg', '-title', 'TGOLN2, -21.3 ± 1.0\n kcal/mol, AUC: 0.509', '-titleSize', '12', '-basesStyle1', 'fill=#ffffff', '-applyBasesStyle1on', '6,9,11,15,20,22,23,24,27,28,29,30,32,33,36,40,41,42,44,49,50,51,54,55,56,61,62,63,65,66,68,69,74,75,76,77,79,81,83,86,87,89,90', '-basesStyle2', 'fill=#00ffff', '-applyBasesStyle2on', '1,2,3,35,43,45,46,47,57,26,31', '-basesStyle3', 'fill=#ffff00', '-applyBasesStyle3on', '64,34,67,70,71,12,78,16,17,53,88,25,59,92', '-basesStyle4', 'fill=#ff0000', '-applyBasesStyle4on', '4,5,7,8,72,10,73,13,14,80,18,19,82,21,84,85,91,93,37,38,39,48,52,58,60']
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Text: 'TGOLN2, -21.3 ± 1.0
 kcal/mol, AUC: 0.509', X: 255.2798227051112, Y: 562.9467767687976, Width: 142.5, Height: 23
Calculated bounding box: (4.75, 5.0, 648.3096454102224, 562.9467767687976)
Updated viewBox: -0.25 0.0 653.5596454102224 567.9467767687976
Updated SVG: /disk1/www/rails/humanrnamap/public/result/d0f90d64-7dd0-4c25-8648-fc97459c2b19/final_image/TGOLN2_fold_final_1.svg
Combined SVG saved as /disk1/www/rails/humanrnamap/public/result/d0f90d64-7dd0-4c25-8648-fc97459c2b19/final_image/TGOLN2_fold_final_1.svg
