Initializing nucleic acids...done.
Applying constraints...done.
Folding single strand...
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 95% [================================================  ] |                     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/681f093f-513a-49af-9b30-87e2ecdd28e0/final_image/BCOR_fold_1.svg

first - Elapsed time since the previous call: 0.00 seconds
first - Current memory usage: 158.21 MB
setup complete - Elapsed time since the previous call: 0.00 seconds
setup complete - Current memory usage: 158.21 MB
config complete - Elapsed time since the previous call: 0.00 seconds
config complete - Current memory usage: 158.21 MB
read annotations - Elapsed time since the previous call: 0.09 seconds
read annotations - Current memory usage: 171.78 MB
Based on canonical annotations, the following gene is in your area of interest: BCOR(-)
write fasta - Elapsed time since the previous call: 0.27 seconds
write fasta - Current memory usage: 171.78 MB
Length of region: 99 nt.
89.3% 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: 0.22 seconds
write dat - Current memory usage: 175.22 MB
Running command: /disk1/www/rails/humanrnamap/cli/bin/Fold "/disk1/www/rails/humanrnamap/public/result/681f093f-513a-49af-9b30-87e2ecdd28e0/fasta/BCOR.fasta" "/disk1/www/rails/humanrnamap/public/result/681f093f-513a-49af-9b30-87e2ecdd28e0/ct/BCOR.ct" --SHAPE "BCOR.dat"

fold - Elapsed time since the previous call: 0.16 seconds
fold - Current memory usage: 175.22 MB
Running command: /disk1/www/rails/humanrnamap/cli/bin/efn2 "/disk1/www/rails/humanrnamap/public/result/681f093f-513a-49af-9b30-87e2ecdd28e0/ct/BCOR.ct" "/disk1/www/rails/humanrnamap/public/result/681f093f-513a-49af-9b30-87e2ecdd28e0/fold_FE/BCOR.txt" -sh "BCOR.dat"

efn2 - Elapsed time since the previous call: 0.41 seconds
efn2 - Current memory usage: 175.22 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/681f093f-513a-49af-9b30-87e2ecdd28e0/ct/BCOR.ct" 1 "/disk1/www/rails/humanrnamap/public/result/681f093f-513a-49af-9b30-87e2ecdd28e0/fold_dbn/BCOR_temp1.dbn"

ct2dot - Elapsed time since the previous call: 0.01 seconds
ct2dot - Current memory usage: 175.22 MB
['java', '-cp', '/disk1/www/rails/humanrnamap/cli/bin/VARNAv3-93.jar', 'fr.orsay.lri.varna.applications.VARNAcmd', '-sequenceDBN', 'AUCCCAAGGCUCCGGAAGGGGGCGAAGGUGCCCAGCCAGUGCCCGGGCAUGCCCGGAAGACAGCGGUUCAAGACAGAAAAGAUGGCAGCUCACCUCCUC', '-structureDBN', '...((........)).((((((.(.((.((((.((((..((.(((((....)))))....))..))))...............)))).))).)))))).', '-o', '/disk1/www/rails/humanrnamap/public/result/681f093f-513a-49af-9b30-87e2ecdd28e0/final_image/BCOR_fold_1.svg', '-title', 'BCOR, -35.6 ± 1.5\n kcal/mol, AUC: 0.758', '-titleSize', '12', '-basesStyle1', 'fill=#ffffff', '-applyBasesStyle1on', '2,6,7,8,9,11,12,13,14,15,16,17,18,19,20,21,22,24,27,28,29,30,35,39,40,41,45,46,47,50,51,55,56,59,63,65,66,67,68,72,76,81,83,84,85,88,90,95,98', '-basesStyle2', 'fill=#00ffff', '-applyBasesStyle2on', '32,96,97,42,43,44,82,52,53,54,23,89,94', '-basesStyle3', 'fill=#ffff00', '-applyBasesStyle3on', '1,34,3,4,5,37,38,71,10,75,78,80,26,91,31', '-basesStyle4', 'fill=#ff0000', '-applyBasesStyle4on', '64,69,70,73,74,77,79,86,87,25,92,93,33,99,36,48,49,57,58,60,61,62']
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Text: '50', X: -4.0, Y: 170.37221563357244, Width: 18.0, Height: 8
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Text: 'BCOR, -35.6 ± 1.5
 kcal/mol, AUC: 0.758', X: 139.54711993333808, Y: 416.9951683445908, Width: 142.5, Height: 23
Calculated bounding box: (-4.0, 4.652444833503125, 413.22796411730656, 416.9951683445908)
Updated viewBox: -9.0 -0.3475551664968748 427.22796411730656 422.3427235110877
Updated SVG: /disk1/www/rails/humanrnamap/public/result/681f093f-513a-49af-9b30-87e2ecdd28e0/final_image/BCOR_fold_final_1.svg
Combined SVG saved as /disk1/www/rails/humanrnamap/public/result/681f093f-513a-49af-9b30-87e2ecdd28e0/final_image/BCOR_fold_final_1.svg
