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/30fb3eed-9767-4a89-87d8-64ad2200c496/final_image/SLC11A2_fold_1.svg

first - Elapsed time since the previous call: 0.00 seconds
first - Current memory usage: 159.20 MB
setup complete - Elapsed time since the previous call: 0.00 seconds
setup complete - Current memory usage: 159.20 MB
config complete - Elapsed time since the previous call: 0.00 seconds
config complete - Current memory usage: 159.20 MB
read annotations - Elapsed time since the previous call: 0.09 seconds
read annotations - Current memory usage: 172.86 MB
Based on canonical annotations, the following gene is in your area of interest: SLC11A2(-)
write fasta - Elapsed time since the previous call: 1.11 seconds
write fasta - Current memory usage: 172.86 MB
Length of region: 96 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: 0.21 seconds
write dat - Current memory usage: 176.27 MB
Running command: /disk1/www/rails/humanrnamap/cli/bin/Fold "/disk1/www/rails/humanrnamap/public/result/30fb3eed-9767-4a89-87d8-64ad2200c496/fasta/SLC11A2.fasta" "/disk1/www/rails/humanrnamap/public/result/30fb3eed-9767-4a89-87d8-64ad2200c496/ct/SLC11A2.ct" --SHAPE "SLC11A2.dat"

fold - Elapsed time since the previous call: 0.11 seconds
fold - Current memory usage: 176.27 MB
Running command: /disk1/www/rails/humanrnamap/cli/bin/efn2 "/disk1/www/rails/humanrnamap/public/result/30fb3eed-9767-4a89-87d8-64ad2200c496/ct/SLC11A2.ct" "/disk1/www/rails/humanrnamap/public/result/30fb3eed-9767-4a89-87d8-64ad2200c496/fold_FE/SLC11A2.txt" -sh "SLC11A2.dat"

efn2 - Elapsed time since the previous call: 0.42 seconds
efn2 - Current memory usage: 176.27 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/30fb3eed-9767-4a89-87d8-64ad2200c496/ct/SLC11A2.ct" 1 "/disk1/www/rails/humanrnamap/public/result/30fb3eed-9767-4a89-87d8-64ad2200c496/fold_dbn/SLC11A2_temp1.dbn"

ct2dot - Elapsed time since the previous call: 0.02 seconds
ct2dot - Current memory usage: 176.27 MB
['java', '-cp', '/disk1/www/rails/humanrnamap/cli/bin/VARNAv3-93.jar', 'fr.orsay.lri.varna.applications.VARNAcmd', '-sequenceDBN', 'AGUCAAGUCUAGACAGGUAAACCGGAACAAUAAGCAGGAAGUUCGAGAAGCCAAUAAGUACUUUUUCAUUGAAUCCUGCAUUGCACUCUUUGUUUC', '-structureDBN', '.(((.......))).........(((((((...((((((.....((((((..........)))))).......))))))..........)))))))', '-o', '/disk1/www/rails/humanrnamap/public/result/30fb3eed-9767-4a89-87d8-64ad2200c496/final_image/SLC11A2_fold_1.svg', '-title', 'SLC11A2, -16.7 ± 0.8\n kcal/mol, AUC: 0.812', '-titleSize', '12', '-basesStyle1', 'fill=#ffffff', '-applyBasesStyle1on', '2,3,7,8,10,12,16,17,18,24,25,31,34,37,38,41,42,43,45,47,50,55,58,59,62,63,64,65,66,69,70,71,74,77,78,81,82,83,87,89,90,91,92,93,94,95', '-basesStyle2', 'fill=#00ffff', '-applyBasesStyle2on', '19,4,36,26,11,76,46', '-basesStyle3', 'fill=#ffff00', '-applyBasesStyle3on', '1,5,6,9,75,13,15,79,85,27,28,29,30,39,48,49,60,61', '-basesStyle4', 'fill=#ff0000', '-applyBasesStyle4on', '67,68,72,73,14,80,20,21,22,23,84,86,88,32,33,96,35,40,44,51,52,53,54,56,57']
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Text: 'SLC11A2, -16.7 ± 0.8
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Calculated bounding box: (4.75, 0.0, 463.755077430877, 355.47697577013236)
Updated viewBox: -0.25 -5.0 469.005077430877 365.47697577013236
Updated SVG: /disk1/www/rails/humanrnamap/public/result/30fb3eed-9767-4a89-87d8-64ad2200c496/final_image/SLC11A2_fold_final_1.svg
Combined SVG saved as /disk1/www/rails/humanrnamap/public/result/30fb3eed-9767-4a89-87d8-64ad2200c496/final_image/SLC11A2_fold_final_1.svg
