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/61401d00-c214-42bb-8ec4-08665a62bac7/final_image/TGOLN2_fold_1.svg

first - Elapsed time since the previous call: 0.00 seconds
first - Current memory usage: 157.29 MB
setup complete - Elapsed time since the previous call: 0.00 seconds
setup complete - Current memory usage: 157.29 MB
config complete - Elapsed time since the previous call: 0.00 seconds
config complete - Current memory usage: 157.29 MB
read annotations - Elapsed time since the previous call: 0.09 seconds
read annotations - Current memory usage: 170.80 MB
Based on canonical annotations, the following gene is in your area of interest: TGOLN2(-)
write fasta - Elapsed time since the previous call: 0.76 seconds
write fasta - Current memory usage: 170.80 MB
Length of region: 86 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: 174.25 MB
Running command: /disk1/www/rails/humanrnamap/cli/bin/Fold "/disk1/www/rails/humanrnamap/public/result/61401d00-c214-42bb-8ec4-08665a62bac7/fasta/TGOLN2.fasta" "/disk1/www/rails/humanrnamap/public/result/61401d00-c214-42bb-8ec4-08665a62bac7/ct/TGOLN2.ct" --SHAPE "TGOLN2.dat"

fold - Elapsed time since the previous call: 0.09 seconds
fold - Current memory usage: 174.25 MB
Running command: /disk1/www/rails/humanrnamap/cli/bin/efn2 "/disk1/www/rails/humanrnamap/public/result/61401d00-c214-42bb-8ec4-08665a62bac7/ct/TGOLN2.ct" "/disk1/www/rails/humanrnamap/public/result/61401d00-c214-42bb-8ec4-08665a62bac7/fold_FE/TGOLN2.txt" -sh "TGOLN2.dat"

efn2 - Elapsed time since the previous call: 0.41 seconds
efn2 - Current memory usage: 174.25 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/61401d00-c214-42bb-8ec4-08665a62bac7/ct/TGOLN2.ct" 1 "/disk1/www/rails/humanrnamap/public/result/61401d00-c214-42bb-8ec4-08665a62bac7/fold_dbn/TGOLN2_temp1.dbn"

ct2dot - Elapsed time since the previous call: 0.01 seconds
ct2dot - Current memory usage: 174.25 MB
['java', '-cp', '/disk1/www/rails/humanrnamap/cli/bin/VARNAv3-93.jar', 'fr.orsay.lri.varna.applications.VARNAcmd', '-sequenceDBN', 'ACAAGUCCGGUGCAGAGGAGCAGGGCCCAAUAGACGGGCCCAGCAAGUCGGGUGCGGAGGAGCAGACCUCAAAAGACAGCCCUAAC', '-structureDBN', '......((........)).((.((((((.......)))))).)).....((((...((((......))))........))))....', '-o', '/disk1/www/rails/humanrnamap/public/result/61401d00-c214-42bb-8ec4-08665a62bac7/final_image/TGOLN2_fold_1.svg', '-title', 'TGOLN2, -31.9 ± 1.0\n kcal/mol, AUC: 0.954', '-titleSize', '12', '-basesStyle1', 'fill=#ffffff', '-applyBasesStyle1on', '5,6,9,10,11,12,15,17,18,20,23,24,25,31,33,36,37,38,43,47,48,50,51,52,53,54,56,57,59,60,62,65,69,75,79,83', '-basesStyle2', 'fill=#00ffff', '-applyBasesStyle2on', '82,39,40,41,26,27,28', '-basesStyle3', 'fill=#ffff00', '-applyBasesStyle3on', '67,68,70,7,8,72,42,44,76,80,84,85,58', '-basesStyle4', 'fill=#ff0000', '-applyBasesStyle4on', '64,1,2,3,4,66,71,73,74,13,14,77,16,78,81,19,21,22,86,29,30,32,34,35,45,46,49,55,61,63']
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Text: 'TGOLN2, -31.9 ± 1.0
 kcal/mol, AUC: 0.954', X: 145.0, Y: 249.33152360604709, Width: 142.5, Height: 23
Calculated bounding box: (4.75, 5.0, 431.5, 249.33152360604709)
Updated viewBox: -0.25 0.0 436.75 254.33152360604709
Updated SVG: /disk1/www/rails/humanrnamap/public/result/61401d00-c214-42bb-8ec4-08665a62bac7/final_image/TGOLN2_fold_final_1.svg
Combined SVG saved as /disk1/www/rails/humanrnamap/public/result/61401d00-c214-42bb-8ec4-08665a62bac7/final_image/TGOLN2_fold_final_1.svg
