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/0594c7d7-eb6d-44ce-b99a-2d06ea32b7a1/final_image/TEX2_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: 172.28 MB
Based on canonical annotations, the following gene is in your area of interest: TEX2(-)
write fasta - Elapsed time since the previous call: 0.58 seconds
write fasta - Current memory usage: 172.28 MB
Length of region: 102 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: 175.52 MB
Running command: /disk1/www/rails/humanrnamap/cli/bin/Fold "/disk1/www/rails/humanrnamap/public/result/0594c7d7-eb6d-44ce-b99a-2d06ea32b7a1/fasta/TEX2.fasta" "/disk1/www/rails/humanrnamap/public/result/0594c7d7-eb6d-44ce-b99a-2d06ea32b7a1/ct/TEX2.ct" --SHAPE "TEX2.dat"

fold - Elapsed time since the previous call: 0.12 seconds
fold - Current memory usage: 175.52 MB
Running command: /disk1/www/rails/humanrnamap/cli/bin/efn2 "/disk1/www/rails/humanrnamap/public/result/0594c7d7-eb6d-44ce-b99a-2d06ea32b7a1/ct/TEX2.ct" "/disk1/www/rails/humanrnamap/public/result/0594c7d7-eb6d-44ce-b99a-2d06ea32b7a1/fold_FE/TEX2.txt" -sh "TEX2.dat"

efn2 - Elapsed time since the previous call: 0.43 seconds
efn2 - Current memory usage: 175.52 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/0594c7d7-eb6d-44ce-b99a-2d06ea32b7a1/ct/TEX2.ct" 1 "/disk1/www/rails/humanrnamap/public/result/0594c7d7-eb6d-44ce-b99a-2d06ea32b7a1/fold_dbn/TEX2_temp1.dbn"

ct2dot - Elapsed time since the previous call: 0.01 seconds
ct2dot - Current memory usage: 175.52 MB
['java', '-cp', '/disk1/www/rails/humanrnamap/cli/bin/VARNAv3-93.jar', 'fr.orsay.lri.varna.applications.VARNAcmd', '-sequenceDBN', 'ACUCCUCCAAAGCUUUUCUUCAGGCAGCCGGUGCACAGUGGACUUUUUCACUUCUAUACUUUGUAUGCGGCCUUCCACACUUCCAGAGAAUGUCAGUGUGCA', '-structureDBN', '...........((((......)))).(((((((((.((((................)))).))))).))))....((((((..((.....))..))))))..', '-o', '/disk1/www/rails/humanrnamap/public/result/0594c7d7-eb6d-44ce-b99a-2d06ea32b7a1/final_image/TEX2_fold_1.svg', '-title', 'TEX2, -23.4 ± 1.1\n kcal/mol, AUC: 0.598', '-titleSize', '12', '-basesStyle1', 'fill=#ffffff', '-applyBasesStyle1on', '3,6,12,14,15,16,17,19,20,23,24,27,30,31,32,33,38,39,40,41,44,45,46,47,48,52,53,55,57,60,61,62,63,64,66,67,69,70,73,74,81,82,86,88,91,92,93,96,97,98,99,100', '-basesStyle2', 'fill=#00ffff', '-applyBasesStyle2on', '4,5,71,8,9,75,76,13,77,78,21,22,25,29,34,42', '-basesStyle3', 'fill=#ffff00', '-applyBasesStyle3on', '36,37,7,72,10,11,43,80,18,83,85,28,94', '-basesStyle4', 'fill=#ff0000', '-applyBasesStyle4on', '1,2,65,68,79,84,87,89,26,90,95,35,101,102,49,50,51,54,56,58,59']
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Text: 'TEX2, -23.4 ± 1.1
 kcal/mol, AUC: 0.598', X: 162.5, Y: 398.9404044995462, Width: 142.5, Height: 23
Calculated bounding box: (4.75, 0.0, 471.0, 398.9404044995462)
Updated viewBox: -0.25 -5.0 476.25 408.9404044995462
Updated SVG: /disk1/www/rails/humanrnamap/public/result/0594c7d7-eb6d-44ce-b99a-2d06ea32b7a1/final_image/TEX2_fold_final_1.svg
Combined SVG saved as /disk1/www/rails/humanrnamap/public/result/0594c7d7-eb6d-44ce-b99a-2d06ea32b7a1/final_image/TEX2_fold_final_1.svg
