Initializing nucleic acids...done.
Applying constraints...done.
Folding single strand...
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 96% [================================================= ] |                     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/895ac7bb-1b94-419d-ab86-6952657f1ba1/final_image/TEX2_fold_1.svg

first - Elapsed time since the previous call: 0.00 seconds
first - Current memory usage: 158.63 MB
setup complete - Elapsed time since the previous call: 0.00 seconds
setup complete - Current memory usage: 158.63 MB
config complete - Elapsed time since the previous call: 0.00 seconds
config complete - Current memory usage: 158.63 MB
read annotations - Elapsed time since the previous call: 0.09 seconds
read annotations - Current memory usage: 172.23 MB
Based on canonical annotations, the following gene is in your area of interest: TEX2(-)
write fasta - Elapsed time since the previous call: 1.17 seconds
write fasta - Current memory usage: 172.23 MB
Length of region: 98 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: 0.19 seconds
write dat - Current memory usage: 175.46 MB
Running command: /disk1/www/rails/humanrnamap/cli/bin/Fold "/disk1/www/rails/humanrnamap/public/result/895ac7bb-1b94-419d-ab86-6952657f1ba1/fasta/TEX2.fasta" "/disk1/www/rails/humanrnamap/public/result/895ac7bb-1b94-419d-ab86-6952657f1ba1/ct/TEX2.ct" --SHAPE "TEX2.dat"

fold - Elapsed time since the previous call: 0.12 seconds
fold - Current memory usage: 175.46 MB
Running command: /disk1/www/rails/humanrnamap/cli/bin/efn2 "/disk1/www/rails/humanrnamap/public/result/895ac7bb-1b94-419d-ab86-6952657f1ba1/ct/TEX2.ct" "/disk1/www/rails/humanrnamap/public/result/895ac7bb-1b94-419d-ab86-6952657f1ba1/fold_FE/TEX2.txt" -sh "TEX2.dat"

efn2 - Elapsed time since the previous call: 0.41 seconds
efn2 - Current memory usage: 175.46 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/895ac7bb-1b94-419d-ab86-6952657f1ba1/ct/TEX2.ct" 1 "/disk1/www/rails/humanrnamap/public/result/895ac7bb-1b94-419d-ab86-6952657f1ba1/fold_dbn/TEX2_temp1.dbn"

ct2dot - Elapsed time since the previous call: 0.01 seconds
ct2dot - Current memory usage: 175.46 MB
['java', '-cp', '/disk1/www/rails/humanrnamap/cli/bin/VARNAv3-93.jar', 'fr.orsay.lri.varna.applications.VARNAcmd', '-sequenceDBN', 'ACUGGAUAGAGAAGAAACUGGAGCAAGAGUUUCAGAAAGUUUUUGUCAUGCCAAACAUGGAUGAUGUUUAUAUCACUAUAAUGCACUCAGCCAUGGAC', '-structureDBN', '..(((...((.(((((.(((((((....)))))))....))))).))...)))..(((((.(((((((((((....))))).))).))).)))))...', '-o', '/disk1/www/rails/humanrnamap/public/result/895ac7bb-1b94-419d-ab86-6952657f1ba1/final_image/TEX2_fold_1.svg', '-title', 'TEX2, -24.2 ± 1.1\n kcal/mol, AUC: 0.704', '-titleSize', '12', '-basesStyle1', 'fill=#ffffff', '-applyBasesStyle1on', '3,4,5,7,9,11,14,19,20,21,23,27,29,30,31,32,35,39,40,41,42,43,44,45,46,49,50,58,59,60,62,63,65,66,67,68,69,71,73,77,79,82,83,87,90,94,95,96', '-basesStyle2', 'fill=#00ffff', '-applyBasesStyle2on', '97,70,53,56,57,91,92,93', '-basesStyle3', 'fill=#ffff00', '-applyBasesStyle3on', '64,72,78,15,16,81,85,22,24,88,28,98,38,47,48,51,52,61', '-basesStyle4', 'fill=#ff0000', '-applyBasesStyle4on', '1,2,6,8,10,74,12,13,75,76,80,17,18,84,86,25,26,89,33,34,36,37,54,55']
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Text: '60', X: 180.8995115573948, Y: 320.76522788319124, Width: 18.0, Height: 8
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Text: 'TEX2, -24.2 ± 1.1
 kcal/mol, AUC: 0.704', X: 81.19975577869741, Y: 433.56522788319126, Width: 142.5, Height: 23
Calculated bounding box: (4.75, 5.0, 303.8995115573948, 433.56522788319126)
Updated viewBox: -0.25 0.0 309.1495115573948 438.56522788319126
Updated SVG: /disk1/www/rails/humanrnamap/public/result/895ac7bb-1b94-419d-ab86-6952657f1ba1/final_image/TEX2_fold_final_1.svg
Combined SVG saved as /disk1/www/rails/humanrnamap/public/result/895ac7bb-1b94-419d-ab86-6952657f1ba1/final_image/TEX2_fold_final_1.svg
