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/e6d9962c-ddb1-43db-a97b-9cfd8249468a/final_image/TEX2_fold_1.svg

first - Elapsed time since the previous call: 0.00 seconds
first - Current memory usage: 156.48 MB
setup complete - Elapsed time since the previous call: 0.00 seconds
setup complete - Current memory usage: 156.48 MB
config complete - Elapsed time since the previous call: 0.00 seconds
config complete - Current memory usage: 156.48 MB
read annotations - Elapsed time since the previous call: 0.09 seconds
read annotations - Current memory usage: 169.94 MB
Based on canonical annotations, the following gene is in your area of interest: TEX2(-)
write fasta - Elapsed time since the previous call: 0.56 seconds
write fasta - Current memory usage: 169.94 MB
Length of region: 103 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: 173.21 MB
Running command: /disk1/www/rails/humanrnamap/cli/bin/Fold "/disk1/www/rails/humanrnamap/public/result/e6d9962c-ddb1-43db-a97b-9cfd8249468a/fasta/TEX2.fasta" "/disk1/www/rails/humanrnamap/public/result/e6d9962c-ddb1-43db-a97b-9cfd8249468a/ct/TEX2.ct" --SHAPE "TEX2.dat"

fold - Elapsed time since the previous call: 0.13 seconds
fold - Current memory usage: 173.21 MB
Running command: /disk1/www/rails/humanrnamap/cli/bin/efn2 "/disk1/www/rails/humanrnamap/public/result/e6d9962c-ddb1-43db-a97b-9cfd8249468a/ct/TEX2.ct" "/disk1/www/rails/humanrnamap/public/result/e6d9962c-ddb1-43db-a97b-9cfd8249468a/fold_FE/TEX2.txt" -sh "TEX2.dat"

efn2 - Elapsed time since the previous call: 0.40 seconds
efn2 - Current memory usage: 173.21 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/e6d9962c-ddb1-43db-a97b-9cfd8249468a/ct/TEX2.ct" 1 "/disk1/www/rails/humanrnamap/public/result/e6d9962c-ddb1-43db-a97b-9cfd8249468a/fold_dbn/TEX2_temp1.dbn"

ct2dot - Elapsed time since the previous call: 0.01 seconds
ct2dot - Current memory usage: 173.21 MB
['java', '-cp', '/disk1/www/rails/humanrnamap/cli/bin/VARNAv3-93.jar', 'fr.orsay.lri.varna.applications.VARNAcmd', '-sequenceDBN', 'CCUCGCUCUACUUCCUGCCUCCUGAAAGACCCACCUGUGGAGGCUGCUGAUCAGCCAUGAUGGGUGAUGUCAGAUGUUCCCCAUAUUGUGACAUCGAGCUGGA', '-structureDBN', '((..((((........((((((....((......))..)))))).(((.((((....)))).)))((((((((((((.....))))).))))))))))).)).', '-o', '/disk1/www/rails/humanrnamap/public/result/e6d9962c-ddb1-43db-a97b-9cfd8249468a/final_image/TEX2_fold_1.svg', '-title', 'TEX2, -33.2 ± 1.0\n kcal/mol, AUC: 0.622', '-titleSize', '12', '-basesStyle1', 'fill=#ffffff', '-applyBasesStyle1on', '3,5,7,9,12,13,16,17,20,23,24,28,36,37,38,39,40,42,43,45,46,48,49,51,54,58,59,61,62,63,64,65,66,68,69,70,73,75,76,77,78,84,86,87,88,89,90,94,96,98,100,101,102', '-basesStyle2', 'fill=#00ffff', '-applyBasesStyle2on', '1,2,103,44,15,80,81,18,19,82,21,22,93,95', '-basesStyle3', 'fill=#ffff00', '-applyBasesStyle3on', '32,33,35,71,41,14,79,92,83,52,55,91,60', '-basesStyle4', 'fill=#ff0000', '-applyBasesStyle4on', '67,4,6,8,72,10,11,74,85,25,26,27,29,30,31,97,34,99,47,50,53,56,57']
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Text: 'TEX2, -33.2 ± 1.0
 kcal/mol, AUC: 0.622', X: 82.74322961850675, Y: 507.6064710270594, Width: 142.5, Height: 23
Calculated bounding box: (-1.0909611456742212, 0.0, 310.22149000406927, 507.6064710270594)
Updated viewBox: -6.090961145674221 -5.0 321.3124511497435 517.6064710270593
Updated SVG: /disk1/www/rails/humanrnamap/public/result/e6d9962c-ddb1-43db-a97b-9cfd8249468a/final_image/TEX2_fold_final_1.svg
Combined SVG saved as /disk1/www/rails/humanrnamap/public/result/e6d9962c-ddb1-43db-a97b-9cfd8249468a/final_image/TEX2_fold_final_1.svg
