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/3752f0f7-6d78-4891-891e-7f88c9afbfe6/final_image/TGOLN2_fold_1.svg

first - Elapsed time since the previous call: 0.00 seconds
first - Current memory usage: 158.68 MB
setup complete - Elapsed time since the previous call: 0.00 seconds
setup complete - Current memory usage: 158.68 MB
config complete - Elapsed time since the previous call: 0.00 seconds
config complete - Current memory usage: 158.68 MB
read annotations - Elapsed time since the previous call: 0.09 seconds
read annotations - Current memory usage: 172.30 MB
Based on canonical annotations, the following gene is in your area of interest: TGOLN2(-)
write fasta - Elapsed time since the previous call: 0.86 seconds
write fasta - Current memory usage: 172.30 MB
Length of region: 90 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: 175.87 MB
Running command: /disk1/www/rails/humanrnamap/cli/bin/Fold "/disk1/www/rails/humanrnamap/public/result/3752f0f7-6d78-4891-891e-7f88c9afbfe6/fasta/TGOLN2.fasta" "/disk1/www/rails/humanrnamap/public/result/3752f0f7-6d78-4891-891e-7f88c9afbfe6/ct/TGOLN2.ct" --SHAPE "TGOLN2.dat"

fold - Elapsed time since the previous call: 0.10 seconds
fold - Current memory usage: 175.87 MB
Running command: /disk1/www/rails/humanrnamap/cli/bin/efn2 "/disk1/www/rails/humanrnamap/public/result/3752f0f7-6d78-4891-891e-7f88c9afbfe6/ct/TGOLN2.ct" "/disk1/www/rails/humanrnamap/public/result/3752f0f7-6d78-4891-891e-7f88c9afbfe6/fold_FE/TGOLN2.txt" -sh "TGOLN2.dat"

efn2 - Elapsed time since the previous call: 0.42 seconds
efn2 - Current memory usage: 175.87 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/3752f0f7-6d78-4891-891e-7f88c9afbfe6/ct/TGOLN2.ct" 1 "/disk1/www/rails/humanrnamap/public/result/3752f0f7-6d78-4891-891e-7f88c9afbfe6/fold_dbn/TGOLN2_temp1.dbn"

ct2dot - Elapsed time since the previous call: 0.01 seconds
ct2dot - Current memory usage: 175.87 MB
['java', '-cp', '/disk1/www/rails/humanrnamap/cli/bin/VARNAv3-93.jar', 'fr.orsay.lri.varna.applications.VARNAcmd', '-sequenceDBN', 'AGGCUGACACAAACCAGCUUGCUGACAAAGGGAAGCUUUCUCCUCAUGCUUUCAAAACCGAAUCUGGGGAGGAAACUGACCUCAUUUCUC', '-structureDBN', '((((((........))))))........(((..((.((((((((((....(((......)))..)))))))))).))..)))........', '-o', '/disk1/www/rails/humanrnamap/public/result/3752f0f7-6d78-4891-891e-7f88c9afbfe6/final_image/TGOLN2_fold_1.svg', '-title', 'TGOLN2, -31.3 ± 1.0\n kcal/mol, AUC: 0.821', '-titleSize', '12', '-basesStyle1', 'fill=#ffffff', '-applyBasesStyle1on', '2,3,5,6,17,19,20,21,23,24,30,31,32,35,37,38,39,41,44,47,48,50,51,52,60,63,65,66,67,68,69,71,72,77,78,82,85,86,87,89', '-basesStyle2', 'fill=#00ffff', '-applyBasesStyle2on', '1,4,70,40,73,74,43,15,16,55,88,90', '-basesStyle3', 'fill=#ffff00', '-applyBasesStyle3on', '9,11,75,80,81,27,28,29,33,34,42,45,46,53,56,59,61,62', '-basesStyle4', 'fill=#ff0000', '-applyBasesStyle4on', '64,7,8,10,12,13,14,76,79,18,83,84,22,25,26,36,49,54,57,58']
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Text: '30', X: 185.3382106905483, Y: 441.8111155649859, Width: 18.0, Height: 8
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Text: '40', X: 185.3382106905483, Y: 263.7811607386873, Width: 18.0, Height: 8
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Text: '50', X: 195.59341696692354, Y: 68.06692012944427, Width: 18.0, Height: 8
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Text: 'TGOLN2, -31.3 ± 1.0
 kcal/mol, AUC: 0.821', X: 127.16910534527415, Y: 494.611115564986, Width: 142.5, Height: 23
Calculated bounding box: (4.75, 5.0, 395.8382106905483, 494.611115564986)
Updated viewBox: -0.25 0.0 401.0882106905483 499.611115564986
Updated SVG: /disk1/www/rails/humanrnamap/public/result/3752f0f7-6d78-4891-891e-7f88c9afbfe6/final_image/TGOLN2_fold_final_1.svg
Combined SVG saved as /disk1/www/rails/humanrnamap/public/result/3752f0f7-6d78-4891-891e-7f88c9afbfe6/final_image/TGOLN2_fold_final_1.svg
