Initializing nucleic acids...done.
Applying constraints...done.
Folding single strand...
  0% [=                                                 ] /                     
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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/91fcbf96-8fe4-4db5-bec3-efd5af4d9c89/final_image/ADAR_fold_1.svg

first - Elapsed time since the previous call: 0.00 seconds
first - Current memory usage: 158.96 MB
setup complete - Elapsed time since the previous call: 0.00 seconds
setup complete - Current memory usage: 158.96 MB
config complete - Elapsed time since the previous call: 0.00 seconds
config complete - Current memory usage: 158.96 MB
read annotations - Elapsed time since the previous call: 0.09 seconds
read annotations - Current memory usage: 172.58 MB
Based on canonical annotations, the following gene is in your area of interest: ADAR(-)
write fasta - Elapsed time since the previous call: 2.05 seconds
write fasta - Current memory usage: 172.58 MB
Length of region: 82 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: 176.00 MB
Running command: /disk1/www/rails/humanrnamap/cli/bin/Fold "/disk1/www/rails/humanrnamap/public/result/91fcbf96-8fe4-4db5-bec3-efd5af4d9c89/fasta/ADAR.fasta" "/disk1/www/rails/humanrnamap/public/result/91fcbf96-8fe4-4db5-bec3-efd5af4d9c89/ct/ADAR.ct" --SHAPE "ADAR.dat"

fold - Elapsed time since the previous call: 0.08 seconds
fold - Current memory usage: 176.00 MB
Running command: /disk1/www/rails/humanrnamap/cli/bin/efn2 "/disk1/www/rails/humanrnamap/public/result/91fcbf96-8fe4-4db5-bec3-efd5af4d9c89/ct/ADAR.ct" "/disk1/www/rails/humanrnamap/public/result/91fcbf96-8fe4-4db5-bec3-efd5af4d9c89/fold_FE/ADAR.txt" -sh "ADAR.dat"

efn2 - Elapsed time since the previous call: 0.43 seconds
efn2 - Current memory usage: 176.00 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/91fcbf96-8fe4-4db5-bec3-efd5af4d9c89/ct/ADAR.ct" 1 "/disk1/www/rails/humanrnamap/public/result/91fcbf96-8fe4-4db5-bec3-efd5af4d9c89/fold_dbn/ADAR_temp1.dbn"

ct2dot - Elapsed time since the previous call: 0.02 seconds
ct2dot - Current memory usage: 176.00 MB
['java', '-cp', '/disk1/www/rails/humanrnamap/cli/bin/VARNAv3-93.jar', 'fr.orsay.lri.varna.applications.VARNAcmd', '-sequenceDBN', 'CUACCCUGUCUUCGAGAAUCCCAAACAAGGAAAGCUCCGCACCAAGGUGGAGAACGGAGAAGGCACAAUCCCUGUGGAAUCC', '-structureDBN', '....(((.((((((....(((.......)))...((((((......))))))..)))))))))((((.....))))......', '-o', '/disk1/www/rails/humanrnamap/public/result/91fcbf96-8fe4-4db5-bec3-efd5af4d9c89/final_image/ADAR_fold_1.svg', '-title', 'ADAR, -24.5 ± 0.8\n kcal/mol, AUC: 0.84', '-titleSize', '12', '-basesStyle1', 'fill=#ffffff', '-applyBasesStyle1on', '2,7,8,9,11,12,14,16,19,29,30,34,36,39,46,47,48,49,50,52,56,57,59,62,63,69,73,74,75,76,77,80', '-basesStyle2', 'fill=#00ffff', '-applyBasesStyle2on', '64,65,66,67,68,72,10,82,21,23,31,37,38,40,51,58,61', '-basesStyle3', 'fill=#ffff00', '-applyBasesStyle3on', '35,4,5,6,70,71,13,81,20,22,24,25', '-basesStyle4', 'fill=#ff0000', '-applyBasesStyle4on', '1,3,78,15,79,17,18,26,27,28,32,33,41,42,43,44,45,53,54,55,60']
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Text: 'ADAR, -24.5 ± 0.8
 kcal/mol, AUC: 0.84', X: 113.08348980878054, Y: 376.01880918586403, Width: 133.5, Height: 23
Calculated bounding box: (4.75, 5.0, 354.9169796175611, 376.01880918586403)
Updated viewBox: -0.25 0.0 360.1669796175611 381.01880918586403
Updated SVG: /disk1/www/rails/humanrnamap/public/result/91fcbf96-8fe4-4db5-bec3-efd5af4d9c89/final_image/ADAR_fold_final_1.svg
Combined SVG saved as /disk1/www/rails/humanrnamap/public/result/91fcbf96-8fe4-4db5-bec3-efd5af4d9c89/final_image/ADAR_fold_final_1.svg
