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/88697fa6-2883-4c91-9c3f-9e008c598e9b/final_image/TGOLN2_fold_1.svg

first - Elapsed time since the previous call: 0.00 seconds
first - Current memory usage: 156.92 MB
setup complete - Elapsed time since the previous call: 0.00 seconds
setup complete - Current memory usage: 156.92 MB
config complete - Elapsed time since the previous call: 0.00 seconds
config complete - Current memory usage: 156.92 MB
read annotations - Elapsed time since the previous call: 0.09 seconds
read annotations - Current memory usage: 170.51 MB
Based on canonical annotations, the following gene is in your area of interest: TGOLN2(-)
write fasta - Elapsed time since the previous call: 0.83 seconds
write fasta - Current memory usage: 170.51 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: 0.24 seconds
write dat - Current memory usage: 173.71 MB
Running command: /disk1/www/rails/humanrnamap/cli/bin/Fold "/disk1/www/rails/humanrnamap/public/result/88697fa6-2883-4c91-9c3f-9e008c598e9b/fasta/TGOLN2.fasta" "/disk1/www/rails/humanrnamap/public/result/88697fa6-2883-4c91-9c3f-9e008c598e9b/ct/TGOLN2.ct" --SHAPE "TGOLN2.dat"

fold - Elapsed time since the previous call: 0.10 seconds
fold - Current memory usage: 173.71 MB
Running command: /disk1/www/rails/humanrnamap/cli/bin/efn2 "/disk1/www/rails/humanrnamap/public/result/88697fa6-2883-4c91-9c3f-9e008c598e9b/ct/TGOLN2.ct" "/disk1/www/rails/humanrnamap/public/result/88697fa6-2883-4c91-9c3f-9e008c598e9b/fold_FE/TGOLN2.txt" -sh "TGOLN2.dat"

efn2 - Elapsed time since the previous call: 0.45 seconds
efn2 - Current memory usage: 173.71 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/88697fa6-2883-4c91-9c3f-9e008c598e9b/ct/TGOLN2.ct" 1 "/disk1/www/rails/humanrnamap/public/result/88697fa6-2883-4c91-9c3f-9e008c598e9b/fold_dbn/TGOLN2_temp1.dbn"

ct2dot - Elapsed time since the previous call: 0.03 seconds
ct2dot - Current memory usage: 173.71 MB
['java', '-cp', '/disk1/www/rails/humanrnamap/cli/bin/VARNAv3-93.jar', 'fr.orsay.lri.varna.applications.VARNAcmd', '-sequenceDBN', 'CAGCAAGUCGGGUGCGGAGGAUCAGACCCCAAAAGACGUCCCUAACAAGUCGGGUGCGGAGAAGCAGACUCCAAAAGACGGCUCUA', '-structureDBN', '.(((..(((((((..(......)..)))).......((.(((.........))))).((((.......))))....))).)))...', '-o', '/disk1/www/rails/humanrnamap/public/result/88697fa6-2883-4c91-9c3f-9e008c598e9b/final_image/TGOLN2_fold_1.svg', '-title', 'TGOLN2, -19.0 ± 1.1\n kcal/mol, AUC: 0.771', '-titleSize', '12', '-basesStyle1', 'fill=#ffffff', '-applyBasesStyle1on', '3,7,8,10,11,12,13,14,16,17,19,20,22,25,35,38,39,43,49,50,52,53,54,55,56,58,59,61,64,67,70,77,80,81,83,85', '-basesStyle2', 'fill=#00ffff', '-applyBasesStyle2on', '1,33,69,71,40,60,82,27,28', '-basesStyle3', 'fill=#ffff00', '-applyBasesStyle3on', '2,34,72,9,41,73,44,74,47,18,21,26,29,31', '-basesStyle4', 'fill=#ff0000', '-applyBasesStyle4on', '65,66,4,5,6,68,75,76,78,15,79,84,86,23,24,30,32,36,37,42,45,46,48,51,57,62,63']
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Text: '20', X: -4.0, Y: 279.90382455034603, Width: 18.0, Height: 8
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Text: 'TGOLN2, -19.0 ± 1.1
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Updated viewBox: -9.0 0.0 406.2194088822171 388.19863766334146
Updated SVG: /disk1/www/rails/humanrnamap/public/result/88697fa6-2883-4c91-9c3f-9e008c598e9b/final_image/TGOLN2_fold_final_1.svg
Combined SVG saved as /disk1/www/rails/humanrnamap/public/result/88697fa6-2883-4c91-9c3f-9e008c598e9b/final_image/TGOLN2_fold_final_1.svg
