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/936fb0a2-beec-407e-88ef-c5af4483eea0/final_image/TNRC18_fold_1.svg

first - Elapsed time since the previous call: 0.00 seconds
first - Current memory usage: 159.32 MB
setup complete - Elapsed time since the previous call: 0.00 seconds
setup complete - Current memory usage: 159.32 MB
config complete - Elapsed time since the previous call: 0.00 seconds
config complete - Current memory usage: 159.32 MB
read annotations - Elapsed time since the previous call: 0.09 seconds
read annotations - Current memory usage: 172.92 MB
Based on canonical annotations, the following gene is in your area of interest: TNRC18(-)
write fasta - Elapsed time since the previous call: 0.42 seconds
write fasta - Current memory usage: 172.92 MB
Length of region: 92 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: 176.13 MB
Running command: /disk1/www/rails/humanrnamap/cli/bin/Fold "/disk1/www/rails/humanrnamap/public/result/936fb0a2-beec-407e-88ef-c5af4483eea0/fasta/TNRC18.fasta" "/disk1/www/rails/humanrnamap/public/result/936fb0a2-beec-407e-88ef-c5af4483eea0/ct/TNRC18.ct" --SHAPE "TNRC18.dat"

fold - Elapsed time since the previous call: 0.11 seconds
fold - Current memory usage: 176.13 MB
Running command: /disk1/www/rails/humanrnamap/cli/bin/efn2 "/disk1/www/rails/humanrnamap/public/result/936fb0a2-beec-407e-88ef-c5af4483eea0/ct/TNRC18.ct" "/disk1/www/rails/humanrnamap/public/result/936fb0a2-beec-407e-88ef-c5af4483eea0/fold_FE/TNRC18.txt" -sh "TNRC18.dat"

efn2 - Elapsed time since the previous call: 0.40 seconds
efn2 - Current memory usage: 176.13 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/936fb0a2-beec-407e-88ef-c5af4483eea0/ct/TNRC18.ct" 1 "/disk1/www/rails/humanrnamap/public/result/936fb0a2-beec-407e-88ef-c5af4483eea0/fold_dbn/TNRC18_temp1.dbn"

ct2dot - Elapsed time since the previous call: 0.02 seconds
ct2dot - Current memory usage: 176.13 MB
['java', '-cp', '/disk1/www/rails/humanrnamap/cli/bin/VARNAv3-93.jar', 'fr.orsay.lri.varna.applications.VARNAcmd', '-sequenceDBN', 'ACAGUUUUAUUGUACCAAGAGACUCGCCCCGCCCCUGUAUCAUAAGCCUUUAAAUGGAGUCAACUUUUUAAUUAUAUAUAUAAAGAUAAAUA', '-structureDBN', '(((((...))))).......(((((...............................)))))...............................', '-o', '/disk1/www/rails/humanrnamap/public/result/936fb0a2-beec-407e-88ef-c5af4483eea0/final_image/TNRC18_fold_1.svg', '-title', 'TNRC18, -5.9 ± 0.4\n kcal/mol, AUC: 0.537', '-titleSize', '12', '-basesStyle1', 'fill=#ffffff', '-applyBasesStyle1on', '4,5,6,7,8,10,11,12,13,19,21,24,26,31,36,37,38,40,43,46,49,50,51,55,56,57,59,60,65,66,67,68,69,72,73,75,77,79,81,85,87,91', '-basesStyle2', 'fill=#00ffff', '-applyBasesStyle2on', '64,1,70,9,74,76,14,22,88,90,92,28,33,42,47,52', '-basesStyle3', 'fill=#ffff00', '-applyBasesStyle3on', '2,3,34,78,48,80,82,23,27,29', '-basesStyle4', 'fill=#ff0000', '-applyBasesStyle4on', '71,15,16,17,18,83,20,84,86,25,89,30,32,35,39,41,44,45,53,54,58,61,62,63']
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Text: 'TNRC18, -5.9 ± 0.4
 kcal/mol, AUC: 0.537', X: 312.5, Y: 326.33339779197865, Width: 142.5, Height: 23
Calculated bounding box: (4.75, 0.0, 766.5, 326.33339779197865)
Updated viewBox: -0.25 -5.0 771.75 336.33339779197865
Updated SVG: /disk1/www/rails/humanrnamap/public/result/936fb0a2-beec-407e-88ef-c5af4483eea0/final_image/TNRC18_fold_final_1.svg
Combined SVG saved as /disk1/www/rails/humanrnamap/public/result/936fb0a2-beec-407e-88ef-c5af4483eea0/final_image/TNRC18_fold_final_1.svg
