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/60b8fc7f-d142-4f8f-ae5b-fb399f08895f/final_image/DNAJC13_fold_1.svg

first - Elapsed time since the previous call: 0.00 seconds
first - Current memory usage: 159.05 MB
setup complete - Elapsed time since the previous call: 0.00 seconds
setup complete - Current memory usage: 159.05 MB
config complete - Elapsed time since the previous call: 0.00 seconds
config complete - Current memory usage: 159.05 MB
read annotations - Elapsed time since the previous call: 0.09 seconds
read annotations - Current memory usage: 172.67 MB
Based on canonical annotations, the following gene is in your area of interest: DNAJC13(+)
write fasta - Elapsed time since the previous call: 0.57 seconds
write fasta - Current memory usage: 172.67 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: 0.18 seconds
write dat - Current memory usage: 176.17 MB
Running command: /disk1/www/rails/humanrnamap/cli/bin/Fold "/disk1/www/rails/humanrnamap/public/result/60b8fc7f-d142-4f8f-ae5b-fb399f08895f/fasta/DNAJC13.fasta" "/disk1/www/rails/humanrnamap/public/result/60b8fc7f-d142-4f8f-ae5b-fb399f08895f/ct/DNAJC13.ct" --SHAPE "DNAJC13.dat"

fold - Elapsed time since the previous call: 0.12 seconds
fold - Current memory usage: 176.17 MB
Running command: /disk1/www/rails/humanrnamap/cli/bin/efn2 "/disk1/www/rails/humanrnamap/public/result/60b8fc7f-d142-4f8f-ae5b-fb399f08895f/ct/DNAJC13.ct" "/disk1/www/rails/humanrnamap/public/result/60b8fc7f-d142-4f8f-ae5b-fb399f08895f/fold_FE/DNAJC13.txt" -sh "DNAJC13.dat"

efn2 - Elapsed time since the previous call: 0.41 seconds
efn2 - Current memory usage: 176.17 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/60b8fc7f-d142-4f8f-ae5b-fb399f08895f/ct/DNAJC13.ct" 1 "/disk1/www/rails/humanrnamap/public/result/60b8fc7f-d142-4f8f-ae5b-fb399f08895f/fold_dbn/DNAJC13_temp1.dbn"

ct2dot - Elapsed time since the previous call: 0.02 seconds
ct2dot - Current memory usage: 176.17 MB
['java', '-cp', '/disk1/www/rails/humanrnamap/cli/bin/VARNAv3-93.jar', 'fr.orsay.lri.varna.applications.VARNAcmd', '-sequenceDBN', 'AAUCCUGAAGCUGCUGUACAUAUUUUUGAAGGAACUCAUGAAAAUCCUGAGUUAAUUUGGAAUGAUAAUUCCAGAGAUAAAGUGUCCACAACAGUUA', '-structureDBN', '........(((((.(((..(((((((......((((((.((...)).))))))..((((((((....))))))))...)))))))..))).))))).', '-o', '/disk1/www/rails/humanrnamap/public/result/60b8fc7f-d142-4f8f-ae5b-fb399f08895f/final_image/DNAJC13_fold_1.svg', '-title', 'DNAJC13, -16.2 ± 1.0\n kcal/mol, AUC: 0.615', '-titleSize', '12', '-basesStyle1', 'fill=#ffffff', '-applyBasesStyle1on', '3,6,7,10,12,13,15,16,17,21,23,24,25,26,27,28,31,32,36,39,40,45,48,49,51,52,53,56,57,58,59,60,63,64,66,69,70,74,76,78,82,83,84,85,94,95,96', '-basesStyle2', 'fill=#00ffff', '-applyBasesStyle2on', '22,71,73,42,11,14', '-basesStyle3', 'fill=#ffff00', '-applyBasesStyle3on', '1,2,68,5,8,9,72,79,80,87,88,33,34,35,37,43,46,47,50,62', '-basesStyle4', 'fill=#ff0000', '-applyBasesStyle4on', '65,67,4,75,77,81,18,19,20,86,89,90,91,92,29,30,93,97,38,41,44,54,55,61']
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Text: 'DNAJC13, -16.2 ± 1.0
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Calculated bounding box: (4.75, 5.0, 386.6793709150956, 636.7052482095055)
Updated viewBox: -0.25 0.0 391.9293709150956 641.7052482095055
Updated SVG: /disk1/www/rails/humanrnamap/public/result/60b8fc7f-d142-4f8f-ae5b-fb399f08895f/final_image/DNAJC13_fold_final_1.svg
Combined SVG saved as /disk1/www/rails/humanrnamap/public/result/60b8fc7f-d142-4f8f-ae5b-fb399f08895f/final_image/DNAJC13_fold_final_1.svg
