Initializing nucleic acids...done.
Applying constraints...done.
Folding single strand...
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 97% [================================================= ] |                     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/ffa78068-ebfa-4cc6-9c93-1753bc236505/final_image/ITCH_fold_1.svg

first - Elapsed time since the previous call: 0.00 seconds
first - Current memory usage: 158.00 MB
setup complete - Elapsed time since the previous call: 0.00 seconds
setup complete - Current memory usage: 158.00 MB
config complete - Elapsed time since the previous call: 0.00 seconds
config complete - Current memory usage: 158.00 MB
read annotations - Elapsed time since the previous call: 0.09 seconds
read annotations - Current memory usage: 171.59 MB
Based on canonical annotations, the following gene is in your area of interest: ITCH(+)
write fasta - Elapsed time since the previous call: 0.28 seconds
write fasta - Current memory usage: 171.59 MB
Length of region: 97 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: 0.17 seconds
write dat - Current memory usage: 174.71 MB
Running command: /disk1/www/rails/humanrnamap/cli/bin/Fold "/disk1/www/rails/humanrnamap/public/result/ffa78068-ebfa-4cc6-9c93-1753bc236505/fasta/ITCH.fasta" "/disk1/www/rails/humanrnamap/public/result/ffa78068-ebfa-4cc6-9c93-1753bc236505/ct/ITCH.ct" --SHAPE "ITCH.dat"

fold - Elapsed time since the previous call: 0.11 seconds
fold - Current memory usage: 174.71 MB
Running command: /disk1/www/rails/humanrnamap/cli/bin/efn2 "/disk1/www/rails/humanrnamap/public/result/ffa78068-ebfa-4cc6-9c93-1753bc236505/ct/ITCH.ct" "/disk1/www/rails/humanrnamap/public/result/ffa78068-ebfa-4cc6-9c93-1753bc236505/fold_FE/ITCH.txt" -sh "ITCH.dat"

efn2 - Elapsed time since the previous call: 0.50 seconds
efn2 - Current memory usage: 174.71 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/ffa78068-ebfa-4cc6-9c93-1753bc236505/ct/ITCH.ct" 1 "/disk1/www/rails/humanrnamap/public/result/ffa78068-ebfa-4cc6-9c93-1753bc236505/fold_dbn/ITCH_temp1.dbn"

ct2dot - Elapsed time since the previous call: 0.02 seconds
ct2dot - Current memory usage: 174.71 MB
['java', '-cp', '/disk1/www/rails/humanrnamap/cli/bin/VARNAv3-93.jar', 'fr.orsay.lri.varna.applications.VARNAcmd', '-sequenceDBN', 'AAAUUUGACUUCAUUGGCAGUGGAUGAAGCCUAAGCCAGCUGAGUCUCUAUCAUAGCUGAACCCUGAGGACAGCCUCAUAGCUCAUGUAUCAGGGAC', '-structureDBN', '..........((((((((...((......))...))))).)))((((((((((((((((.....(((((....)))))))))).))).)).))))))', '-o', '/disk1/www/rails/humanrnamap/public/result/ffa78068-ebfa-4cc6-9c93-1753bc236505/final_image/ITCH_fold_1.svg', '-title', 'ITCH, -35.7 ± 1.1\n kcal/mol, AUC: 0.804', '-titleSize', '12', '-basesStyle1', 'fill=#ffffff', '-applyBasesStyle1on', '4,5,6,7,10,11,14,15,16,17,20,21,22,23,25,26,29,32,35,39,41,42,44,45,47,49,51,54,56,58,59,65,66,68,69,73,76,79,81,83,86,87,88,90,93,94,95', '-basesStyle2', 'fill=#00ffff', '-applyBasesStyle2on', '1,67,72,74,75,12,18,82,85,27,92,28,97,36,37,38,46,48', '-basesStyle3', 'fill=#ffff00', '-applyBasesStyle3on', '3,9,13,77,78,19,24,89,30,31,96,33,43,50,52,55,57', '-basesStyle4', 'fill=#ff0000', '-applyBasesStyle4on', '64,2,34,70,71,8,40,80,84,53,91,60,61,62,63']
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Text: 'C', X: 262.25, Y: 388.1010147415072, Width: 10.5, Height: 8
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Text: '40', X: 231.8344630859885, Y: 326.66139592365624, Width: 18.0, Height: 8
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Text: '50', X: 202.66559856551055, Y: 266.66111996861025, Width: 18.0, Height: 8
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Text: '60', X: 69.78813182491305, Y: 198.78502822782224, Width: 18.0, Height: 8
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Text: '97', X: 258.5, Y: 408.1010147415072, Width: 18.0, Height: 8
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Text: 'ITCH, -35.7 ± 1.1
 kcal/mol, AUC: 0.804', X: 69.4078172461218, Y: 420.9010147415072, Width: 142.5, Height: 23
Calculated bounding box: (4.75, 5.0, 288.5172116257088, 420.9010147415072)
Updated viewBox: -0.25 0.0 293.7672116257088 425.9010147415072
Updated SVG: /disk1/www/rails/humanrnamap/public/result/ffa78068-ebfa-4cc6-9c93-1753bc236505/final_image/ITCH_fold_final_1.svg
Combined SVG saved as /disk1/www/rails/humanrnamap/public/result/ffa78068-ebfa-4cc6-9c93-1753bc236505/final_image/ITCH_fold_final_1.svg
