Initializing nucleic acids...done.
Applying constraints...done.
Folding single strand...
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 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/dc4e74bc-8ba3-4f10-a472-0ae66c8a9690/final_image/DVL1_fold_1.svg

first - Elapsed time since the previous call: 0.00 seconds
first - Current memory usage: 159.46 MB
setup complete - Elapsed time since the previous call: 0.00 seconds
setup complete - Current memory usage: 159.46 MB
config complete - Elapsed time since the previous call: 0.00 seconds
config complete - Current memory usage: 159.46 MB
read annotations - Elapsed time since the previous call: 0.09 seconds
read annotations - Current memory usage: 173.12 MB
Based on canonical annotations, the following gene is in your area of interest: DVL1(-)
write fasta - Elapsed time since the previous call: 1.95 seconds
write fasta - Current memory usage: 173.12 MB
Length of region: 85 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: 176.39 MB
Running command: /disk1/www/rails/humanrnamap/cli/bin/Fold "/disk1/www/rails/humanrnamap/public/result/dc4e74bc-8ba3-4f10-a472-0ae66c8a9690/fasta/DVL1.fasta" "/disk1/www/rails/humanrnamap/public/result/dc4e74bc-8ba3-4f10-a472-0ae66c8a9690/ct/DVL1.ct" --SHAPE "DVL1.dat"

fold - Elapsed time since the previous call: 0.10 seconds
fold - Current memory usage: 176.39 MB
Running command: /disk1/www/rails/humanrnamap/cli/bin/efn2 "/disk1/www/rails/humanrnamap/public/result/dc4e74bc-8ba3-4f10-a472-0ae66c8a9690/ct/DVL1.ct" "/disk1/www/rails/humanrnamap/public/result/dc4e74bc-8ba3-4f10-a472-0ae66c8a9690/fold_FE/DVL1.txt" -sh "DVL1.dat"

efn2 - Elapsed time since the previous call: 0.53 seconds
efn2 - Current memory usage: 176.39 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/dc4e74bc-8ba3-4f10-a472-0ae66c8a9690/ct/DVL1.ct" 1 "/disk1/www/rails/humanrnamap/public/result/dc4e74bc-8ba3-4f10-a472-0ae66c8a9690/fold_dbn/DVL1_temp1.dbn"

ct2dot - Elapsed time since the previous call: 0.02 seconds
ct2dot - Current memory usage: 176.39 MB
['java', '-cp', '/disk1/www/rails/humanrnamap/cli/bin/VARNAv3-93.jar', 'fr.orsay.lri.varna.applications.VARNAcmd', '-sequenceDBN', 'CAACAAGAUCACCUUCUCCGAGCAGUGCUACUACGUCUUCGGGGAUCUCUGCAGCAAUCUCGCCACCCUGAACCUCAACAGUGGC', '-structureDBN', '.....((((((...((((((((..(((....)))...))))))))....)).....)))).(((((..(((...)))...)))))', '-o', '/disk1/www/rails/humanrnamap/public/result/dc4e74bc-8ba3-4f10-a472-0ae66c8a9690/final_image/DVL1_fold_1.svg', '-title', 'DVL1, -22.2 ± 1.2\n kcal/mol, AUC: 0.669', '-titleSize', '12', '-basesStyle1', 'fill=#ffffff', '-applyBasesStyle1on', '7,9,14,15,17,20,22,25,26,27,29,32,35,36,38,39,41,42,43,44,46,48,50,51,54,58,60,62,69,70,75,81,82,83,84', '-basesStyle2', 'fill=#00ffff', '-applyBasesStyle2on', '64,65,67,68,10,16,18,19,52,85,23,63', '-basesStyle3', 'fill=#ffff00', '-applyBasesStyle3on', '66,5,71,74,76,13,28,37,40,45,47,53,55,56,57,59,61', '-basesStyle4', 'fill=#ff0000', '-applyBasesStyle4on', '1,2,3,4,6,8,72,73,11,12,77,78,79,80,21,24,30,31,33,34,49']
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Text: 'U', X: 394.0798690214, Y: 207.16207861841826, Width: 10.5, Height: 8
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Text: 'C', X: 429.0798690214, Y: 187.16207861841826, Width: 10.5, Height: 8
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Text: '30', X: -4.0, Y: 212.79676644098933, Width: 18.0, Height: 8
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Text: 'DVL1, -22.2 ± 1.2
 kcal/mol, AUC: 0.669', X: 181.67560352025518, Y: 246.44101503722206, Width: 142.5, Height: 23
Calculated bounding box: (-4.0, 5.0, 505.5575758733068, 246.44101503722206)
Updated viewBox: -9.0 0.0 519.5575758733069 251.44101503722206
Updated SVG: /disk1/www/rails/humanrnamap/public/result/dc4e74bc-8ba3-4f10-a472-0ae66c8a9690/final_image/DVL1_fold_final_1.svg
Combined SVG saved as /disk1/www/rails/humanrnamap/public/result/dc4e74bc-8ba3-4f10-a472-0ae66c8a9690/final_image/DVL1_fold_final_1.svg
