Initializing nucleic acids...done.
Applying constraints...done.
Folding single strand...
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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/ba584414-5d79-4e62-82c3-02178dbeaa16/final_image/TNRC18_fold_1.svg

first - Elapsed time since the previous call: 0.00 seconds
first - Current memory usage: 156.76 MB
setup complete - Elapsed time since the previous call: 0.00 seconds
setup complete - Current memory usage: 156.76 MB
config complete - Elapsed time since the previous call: 0.00 seconds
config complete - Current memory usage: 156.76 MB
read annotations - Elapsed time since the previous call: 0.09 seconds
read annotations - Current memory usage: 170.35 MB
Based on canonical annotations, the following gene is in your area of interest: TNRC18(-)
write fasta - Elapsed time since the previous call: 0.92 seconds
write fasta - Current memory usage: 170.35 MB
Length of region: 91 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: 0.20 seconds
write dat - Current memory usage: 173.46 MB
Running command: /disk1/www/rails/humanrnamap/cli/bin/Fold "/disk1/www/rails/humanrnamap/public/result/ba584414-5d79-4e62-82c3-02178dbeaa16/fasta/TNRC18.fasta" "/disk1/www/rails/humanrnamap/public/result/ba584414-5d79-4e62-82c3-02178dbeaa16/ct/TNRC18.ct" --SHAPE "TNRC18.dat"

fold - Elapsed time since the previous call: 0.11 seconds
fold - Current memory usage: 173.46 MB
Running command: /disk1/www/rails/humanrnamap/cli/bin/efn2 "/disk1/www/rails/humanrnamap/public/result/ba584414-5d79-4e62-82c3-02178dbeaa16/ct/TNRC18.ct" "/disk1/www/rails/humanrnamap/public/result/ba584414-5d79-4e62-82c3-02178dbeaa16/fold_FE/TNRC18.txt" -sh "TNRC18.dat"

efn2 - Elapsed time since the previous call: 0.41 seconds
efn2 - Current memory usage: 173.46 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/ba584414-5d79-4e62-82c3-02178dbeaa16/ct/TNRC18.ct" 1 "/disk1/www/rails/humanrnamap/public/result/ba584414-5d79-4e62-82c3-02178dbeaa16/fold_dbn/TNRC18_temp1.dbn"

ct2dot - Elapsed time since the previous call: 0.01 seconds
ct2dot - Current memory usage: 173.46 MB
['java', '-cp', '/disk1/www/rails/humanrnamap/cli/bin/VARNAv3-93.jar', 'fr.orsay.lri.varna.applications.VARNAcmd', '-sequenceDBN', 'CGGCCGCUGACCCCGGCCCCUCGCUCCUGCAUCAUCGACAAGGAUGAGCUGAAGGACGGCCUGCGUGUGCUCAUCCCCAUGGAUGACAAGC', '-structureDBN', '.(((((.......)))))....((....)).(((((.....((((((((...(((....)))......)))))))).....))))).....', '-o', '/disk1/www/rails/humanrnamap/public/result/ba584414-5d79-4e62-82c3-02178dbeaa16/final_image/TNRC18_fold_1.svg', '-title', 'TNRC18, -43.5 ± 1.0\n kcal/mol, AUC: 0.936', '-titleSize', '12', '-basesStyle1', 'fill=#ffffff', '-applyBasesStyle1on', '2,3,6,8,9,15,16,21,23,25,28,29,32,35,37,42,43,45,46,48,50,51,54,55,58,59,62,63,65,66,67,68,69,71,74,80,81,82,84,85,90', '-basesStyle2', 'fill=#00ffff', '-applyBasesStyle2on', '4,5,70,72,73,75,76,14,17,18,83,26,27,33,34,36,44,60,61', '-basesStyle3', 'fill=#ffff00', '-applyBasesStyle3on', '7,10,11,78,19,20,22,86,24,89,91,30,47,49,52,53,57', '-basesStyle4', 'fill=#ff0000', '-applyBasesStyle4on', '64,1,38,39,40,41,12,13,77,79,87,56,88,31']
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Text: 'TNRC18, -43.5 ± 1.0
 kcal/mol, AUC: 0.936', X: 101.25, Y: 469.45996308073563, Width: 142.5, Height: 23
Calculated bounding box: (4.75, 5.0, 344.0, 469.45996308073563)
Updated viewBox: -0.25 0.0 349.25 474.45996308073563
Updated SVG: /disk1/www/rails/humanrnamap/public/result/ba584414-5d79-4e62-82c3-02178dbeaa16/final_image/TNRC18_fold_final_1.svg
Combined SVG saved as /disk1/www/rails/humanrnamap/public/result/ba584414-5d79-4e62-82c3-02178dbeaa16/final_image/TNRC18_fold_final_1.svg
