Source: prottest Version: 3.4.2+dfsg-6 X-Debbugs-CC: debian...@lists.debian.org Severity: serious User: debian...@lists.debian.org Usertags: regression
Dear maintainer(s), With a recent upload of prottest the autopkgtest of prottest fails in testing when that autopkgtest is run with the binary packages of prottest from unstable. It passes when run with only packages from testing. In tabular form: pass fail prottest from testing 3.4.2+dfsg-6 all others from testing from testing I copied some of the output at the bottom of this report. Currently this regression is blocking the migration to testing [1]. Can you please investigate the situation and fix it? More information about this bug and the reason for filing it can be found on https://wiki.debian.org/ContinuousIntegration/RegressionEmailInformation Paul [1] https://qa.debian.org/excuses.php?package=prottest https://ci.debian.net/data/autopkgtest/testing/amd64/p/prottest/16225046/log.gz ------------------------------------------------------------------------------------------------- Basic usage: - Sequential version: java -jar prottest-3.4.2.jar -i align_file [OPTIONS] ./prottest3 -i align_file [OPTIONS] - Parallel version: mpjrun.sh -wdir $PWD/ -np [NUM_PROCS] -jar prottest-3.4.2.jar -i align_file [OPTIONS] OPTIONS: -i alignment_filename Alignment input file (required) -t tree_filename Tree file (optional) [default: NJ tree] -o output_filename Output file (optional) [default: standard output] -log enabled/disabled Enables / Disables PhyML logging into log directory (see prottest.properties) -[matrix] Include matrix (Amino-acid) = JTT LG DCMut MtREV MtMam MtArt Dayhoff WAG RtREV CpREV Blosum62 VT HIVb HIVw FLU If you don't specify any matrix, all matrices displayed above will be included. -I Include models with a proportion of invariable sites -G Include models with rate variation among sites and number of categories -IG include models with both +I and +G properties -all-distributions Include models with rate variation among sites, number of categories and both -ncat number_of_categories Define number of categories for +G and +I+G models [default: 4] -F Include models with empirical frequency estimation -AIC Display models sorted by Akaike Information Criterion (AIC) -BIC Display models sorted by Bayesian Information Criterion (BIC) -AICC Display models sorted by Corrected Akaike Information Criterion (AICc) -DT Display models sorted by Decision Theory Criterion -all Displays a 7-framework comparison table -S optimization_strategy Optimization strategy mode: [default: 0] 0: Fixed BIONJ JTT 1: BIONJ Tree 2: Maximum Likelihood tree 3: User defined topology -s moves Tree search operation for ML search: NNI (fastest), SPR (slowest), BEST (best of NNI and SPR) [default: NNI] -t1 Display best-model's newick tree [default: false] -t2 Display best-model's ASCII tree [default: false] -tc consensus_threshold Display consensus tree with the specified threshold, between 0.5 and 1.0 [0.5 = majority rule consensus ; 1.0 = strict consensus] -threads number_or_threads Number of threads requested to compute (only if MPJ is not used) [default: 1] -verbose Verbose mode [default: false] ------------------------------------------------------------------------------------------------- Example: - Sequential version: java -jar prottest-3.4.2.jar -i align_file -t tree_file -S 0 -all-distributions -F -AIC -BIC -tc 0.5 > output - Parallel version: mpjrun.sh -wdir $PWD/ -np 2 -jar prottest-3.4.2.jar -i align_file -t tree_file -S 0 -all-distributions -F -AIC -BIC -tc 0.5 PHYLIP format detected.MSA read in PHYLIP format (Taxa = 28, Length = 149).MSA successfully converted to PHYLIP format! No such file or directory ---------------------------------------------------------------------------------------------- ProtTest 3.4.2 Fast selection of the best-fit models of protein evolution (c) 2009-2016 Diego Darriba (1,2), Guillermo Taboada (2), Ramón Doallo (2), David Posada (1) (1) Facultad de Biologia, Universidad de Vigo, 36200 Vigo, Spain (2) Facultade de Informática, Universidade da Coruña, 15071 A Coruña, Spain ---------------------------------------------------------------------------------------------- Manual: http://darwin.uvigo.es/download/prottest_manual.pdf Homepage: http://github.com/ddarriba/prottest3 Discussion group: https://groups.google.com/group/prottest Contact: ddarr...@h-its.org, dpos...@uvigo.es ---------------------------------------------------------------------------------------------- Version: 3.4.2 : 8th May 2016 Date: Tue Oct 26 10:11:23 UTC 2021 OS: Linux (4.19.0-18-amd64) Arch: amd64 Java: 11.0.12 (Debian) PhyML: /usr/bin/phyml Citation: Darriba D, Taboada GL, Doallo R, Posada D. ProtTest 3: fast selection of best-fit models of protein evolution. Bioinformatics, 27:1164-1165, 2011 ProtTest options ---------------- Alignment file........... : COX2_PF0016/alignment Tree..................... : COX2_PF0016/tree StrategyMode............. : User defined topology Candidate models......... : Matrices............... : JTT LG DCMut MtREV MtMam MtArt Dayhoff WAG RtREV CpREV Blosum62 VT HIVb HIVw FLU Distributions.......... : Uniform +G +I +I+G Observed frequencies... : true Statistical framework Sort models according to....: AIC BIC Sample size.................: 149.0 Other options: Display best tree in ASCII..: false Display best tree in Newick.: false Display consensus tree......: true Consensus threshold.........: 0.5 Verbose.....................: false ********************************************************** Observed number of invariant sites: 13 Observed aminoacid frequencies: A: 0.044 C: 0.018 D: 0.054 E: 0.056 F: 0.049 G: 0.057 H: 0.026 I: 0.086 K: 0.032 L: 0.086 M: 0.039 N: 0.055 P: 0.051 Q: 0.034 R: 0.036 S: 0.086 T: 0.050 V: 0.068 W: 0.028 Y: 0.044 ********************************************************** Model optimization exception: there was an error while executing there was an error parsing PhyML stats file: Stats file does not exist. Please check if PhyML is working. Model................................ : JTT Number of parameters............... : 53 (0 + 53 branch length estimates) Model optimization exception: there was an error while executing there was an error parsing PhyML stats file: Stats file does not exist. Please check if PhyML is working. Model................................ : JTT+F Number of parameters............... : 72 (19 + 53 branch length estimates) Model optimization exception: there was an error while executing there was an error parsing PhyML stats file: Stats file does not exist. Please check if PhyML is working. Model................................ : JTT+I Number of parameters............... : 54 (1 + 53 branch length estimates) Model optimization exception: there was an error while executing there was an error parsing PhyML stats file: Stats file does not exist. Please check if PhyML is working. Model................................ : JTT+I+F Number of parameters............... : 73 (20 + 53 branch length estimates) Model optimization exception: there was an error while executing there was an error parsing PhyML stats file: Stats file does not exist. Please check if PhyML is working. Model................................ : JTT+G Number of parameters............... : 54 (1 + 53 branch length estimates) Model optimization exception: there was an error while executing there was an error parsing PhyML stats file: Stats file does not exist. Please check if PhyML is working. Model................................ : JTT+G+F Number of parameters............... : 73 (20 + 53 branch length estimates) Model optimization exception: there was an error while executing there was an error parsing PhyML stats file: Stats file does not exist. Please check if PhyML is working. Model................................ : JTT+I+G Number of parameters............... : 55 (2 + 53 branch length estimates) Model optimization exception: there was an error while executing there was an error parsing PhyML stats file: Stats file does not exist. Please check if PhyML is working. Model................................ : JTT+I+G+F Number of parameters............... : 74 (21 + 53 branch length estimates) Model optimization exception: there was an error while executing there was an error parsing PhyML stats file: Stats file does not exist. Please check if PhyML is working. Model................................ : LG Number of parameters............... : 53 (0 + 53 branch length estimates) Model optimization exception: there was an error while executing there was an error parsing PhyML stats file: Stats file does not exist. Please check if PhyML is working. Model................................ : LG+F Number of parameters............... : 72 (19 + 53 branch length estimates) Model optimization exception: there was an error while executing there was an error parsing PhyML stats file: Stats file does not exist. Please check if PhyML is working. Model................................ : LG+I Number of parameters............... : 54 (1 + 53 branch length estimates) Model optimization exception: there was an error while executing there was an error parsing PhyML stats file: Stats file does not exist. Please check if PhyML is working. Model................................ : LG+I+F Number of parameters............... : 73 (20 + 53 branch length estimates) Model optimization exception: there was an error while executing there was an error parsing PhyML stats file: Stats file does not exist. Please check if PhyML is working. Model................................ : LG+G Number of parameters............... : 54 (1 + 53 branch length estimates) Model optimization exception: there was an error while executing there was an error parsing PhyML stats file: Stats file does not exist. Please check if PhyML is working. Model................................ : LG+G+F Number of parameters............... : 73 (20 + 53 branch length estimates) Model optimization exception: there was an error while executing there was an error parsing PhyML stats file: Stats file does not exist. Please check if PhyML is working. Model................................ : LG+I+G Number of parameters............... : 55 (2 + 53 branch length estimates) Model optimization exception: there was an error while executing there was an error parsing PhyML stats file: Stats file does not exist. Please check if PhyML is working. Model................................ : LG+I+G+F Number of parameters............... : 74 (21 + 53 branch length estimates) Model optimization exception: there was an error while executing there was an error parsing PhyML stats file: Stats file does not exist. Please check if PhyML is working. Model................................ : DCMut Number of parameters............... : 53 (0 + 53 branch length estimates) Model optimization exception: there was an error while executing there was an error parsing PhyML stats file: Stats file does not exist. Please check if PhyML is working. Model................................ : DCMut+F Number of parameters............... : 72 (19 + 53 branch length estimates) Model optimization exception: there was an error while executing there was an error parsing PhyML stats file: Stats file does not exist. Please check if PhyML is working. Model................................ : DCMut+I Number of parameters............... : 54 (1 + 53 branch length estimates) Model optimization exception: there was an error while executing there was an error parsing PhyML stats file: Stats file does not exist. Please check if PhyML is working. Model................................ : DCMut+I+F Number of parameters............... : 73 (20 + 53 branch length estimates) Model optimization exception: there was an error while executing there was an error parsing PhyML stats file: Stats file does not exist. Please check if PhyML is working. Model................................ : DCMut+G Number of parameters............... : 54 (1 + 53 branch length estimates) Model optimization exception: there was an error while executing there was an error parsing PhyML stats file: Stats file does not exist. Please check if PhyML is working. Model................................ : DCMut+G+F Number of parameters............... : 73 (20 + 53 branch length estimates) Model optimization exception: there was an error while executing there was an error parsing PhyML stats file: Stats file does not exist. Please check if PhyML is working. Model................................ : DCMut+I+G Number of parameters............... : 55 (2 + 53 branch length estimates) Model optimization exception: there was an error while executing there was an error parsing PhyML stats file: Stats file does not exist. Please check if PhyML is working. Model................................ : DCMut+I+G+F Number of parameters............... : 74 (21 + 53 branch length estimates) Model optimization exception: there was an error while executing there was an error parsing PhyML stats file: Stats file does not exist. Please check if PhyML is working. Model................................ : MtREV Number of parameters............... : 53 (0 + 53 branch length estimates) Model optimization exception: there was an error while executing there was an error parsing PhyML stats file: Stats file does not exist. Please check if PhyML is working. Model................................ : MtREV+F Number of parameters............... : 72 (19 + 53 branch length estimates) Model optimization exception: there was an error while executing there was an error parsing PhyML stats file: Stats file does not exist. Please check if PhyML is working. Model................................ : MtREV+I Number of parameters............... : 54 (1 + 53 branch length estimates) Model optimization exception: there was an error while executing there was an error parsing PhyML stats file: Stats file does not exist. Please check if PhyML is working. Model................................ : MtREV+I+F Number of parameters............... : 73 (20 + 53 branch length estimates) Model optimization exception: there was an error while executing there was an error parsing PhyML stats file: Stats file does not exist. Please check if PhyML is working. Model................................ : MtREV+G Number of parameters............... : 54 (1 + 53 branch length estimates) Model optimization exception: there was an error while executing there was an error parsing PhyML stats file: Stats file does not exist. Please check if PhyML is working. Model................................ : MtREV+G+F Number of parameters............... : 73 (20 + 53 branch length estimates) Model optimization exception: there was an error while executing there was an error parsing PhyML stats file: Stats file does not exist. Please check if PhyML is working. Model................................ : MtREV+I+G Number of parameters............... : 55 (2 + 53 branch length estimates) Model optimization exception: there was an error while executing there was an error parsing PhyML stats file: Stats file does not exist. Please check if PhyML is working. Model................................ : MtREV+I+G+F Number of parameters............... : 74 (21 + 53 branch length estimates) Model optimization exception: there was an error while executing there was an error parsing PhyML stats file: Stats file does not exist. Please check if PhyML is working. Model................................ : MtMam Number of parameters............... : 53 (0 + 53 branch length estimates) Model optimization exception: there was an error while executing there was an error parsing PhyML stats file: Stats file does not exist. Please check if PhyML is working. Model................................ : MtMam+F Number of parameters............... : 72 (19 + 53 branch length estimates) Model optimization exception: there was an error while executing there was an error parsing PhyML stats file: Stats file does not exist. Please check if PhyML is working. Model................................ : MtMam+I Number of parameters............... : 54 (1 + 53 branch length estimates) Model optimization exception: there was an error while executing there was an error parsing PhyML stats file: Stats file does not exist. Please check if PhyML is working. Model................................ : MtMam+I+F Number of parameters............... : 73 (20 + 53 branch length estimates) Model optimization exception: there was an error while executing there was an error parsing PhyML stats file: Stats file does not exist. Please check if PhyML is working. Model................................ : MtMam+G Number of parameters............... : 54 (1 + 53 branch length estimates) Model optimization exception: there was an error while executing there was an error parsing PhyML stats file: Stats file does not exist. Please check if PhyML is working. Model................................ : MtMam+G+F Number of parameters............... : 73 (20 + 53 branch length estimates) Model optimization exception: there was an error while executing there was an error parsing PhyML stats file: Stats file does not exist. Please check if PhyML is working. Model................................ : MtMam+I+G Number of parameters............... : 55 (2 + 53 branch length estimates) Model optimization exception: there was an error while executing there was an error parsing PhyML stats file: Stats file does not exist. Please check if PhyML is working. Model................................ : MtMam+I+G+F Number of parameters............... : 74 (21 + 53 branch length estimates) Model optimization exception: there was an error while executing there was an error parsing PhyML stats file: Stats file does not exist. Please check if PhyML is working. Model................................ : MtArt Number of parameters............... : 53 (0 + 53 branch length estimates) Model optimization exception: there was an error while executing there was an error parsing PhyML stats file: Stats file does not exist. Please check if PhyML is working. Model................................ : MtArt+F Number of parameters............... : 72 (19 + 53 branch length estimates) Model optimization exception: there was an error while executing there was an error parsing PhyML stats file: Stats file does not exist. Please check if PhyML is working. Model................................ : MtArt+I Number of parameters............... : 54 (1 + 53 branch length estimates) Model optimization exception: there was an error while executing there was an error parsing PhyML stats file: Stats file does not exist. Please check if PhyML is working. Model................................ : MtArt+I+F Number of parameters............... : 73 (20 + 53 branch length estimates) Model optimization exception: there was an error while executing there was an error parsing PhyML stats file: Stats file does not exist. Please check if PhyML is working. Model................................ : MtArt+G Number of parameters............... : 54 (1 + 53 branch length estimates) Model optimization exception: there was an error while executing there was an error parsing PhyML stats file: Stats file does not exist. Please check if PhyML is working. Model................................ : MtArt+G+F Number of parameters............... : 73 (20 + 53 branch length estimates) Model optimization exception: there was an error while executing there was an error parsing PhyML stats file: Stats file does not exist. Please check if PhyML is working. Model................................ : MtArt+I+G Number of parameters............... : 55 (2 + 53 branch length estimates) Model optimization exception: there was an error while executing there was an error parsing PhyML stats file: Stats file does not exist. Please check if PhyML is working. Model................................ : MtArt+I+G+F Number of parameters............... : 74 (21 + 53 branch length estimates) Model optimization exception: there was an error while executing there was an error parsing PhyML stats file: Stats file does not exist. Please check if PhyML is working. Model................................ : Dayhoff Number of parameters............... : 53 (0 + 53 branch length estimates) Model optimization exception: there was an error while executing there was an error parsing PhyML stats file: Stats file does not exist. Please check if PhyML is working. Model................................ : Dayhoff+F Number of parameters............... : 72 (19 + 53 branch length estimates) Model optimization exception: there was an error while executing there was an error parsing PhyML stats file: Stats file does not exist. Please check if PhyML is working. Model................................ : Dayhoff+I Number of parameters............... : 54 (1 + 53 branch length estimates) Model optimization exception: there was an error while executing there was an error parsing PhyML stats file: Stats file does not exist. Please check if PhyML is working. Model................................ : Dayhoff+I+F Number of parameters............... : 73 (20 + 53 branch length estimates) Model optimization exception: there was an error while executing there was an error parsing PhyML stats file: Stats file does not exist. Please check if PhyML is working. Model................................ : Dayhoff+G Number of parameters............... : 54 (1 + 53 branch length estimates) Model optimization exception: there was an error while executing there was an error parsing PhyML stats file: Stats file does not exist. Please check if PhyML is working. Model................................ : Dayhoff+G+F Number of parameters............... : 73 (20 + 53 branch length estimates) Model optimization exception: there was an error while executing there was an error parsing PhyML stats file: Stats file does not exist. Please check if PhyML is working. Model................................ : Dayhoff+I+G Number of parameters............... : 55 (2 + 53 branch length estimates) Model optimization exception: there was an error while executing there was an error parsing PhyML stats file: Stats file does not exist. Please check if PhyML is working. Model................................ : Dayhoff+I+G+F Number of parameters............... : 74 (21 + 53 branch length estimates) Model optimization exception: there was an error while executing there was an error parsing PhyML stats file: Stats file does not exist. Please check if PhyML is working. Model................................ : WAG Number of parameters............... : 53 (0 + 53 branch length estimates) Model optimization exception: there was an error while executing there was an error parsing PhyML stats file: Stats file does not exist. Please check if PhyML is working. Model................................ : WAG+F Number of parameters............... : 72 (19 + 53 branch length estimates) Model optimization exception: there was an error while executing there was an error parsing PhyML stats file: Stats file does not exist. Please check if PhyML is working. Model................................ : WAG+I Number of parameters............... : 54 (1 + 53 branch length estimates) Model optimization exception: there was an error while executing there was an error parsing PhyML stats file: Stats file does not exist. Please check if PhyML is working. Model................................ : WAG+I+F Number of parameters............... : 73 (20 + 53 branch length estimates) Model optimization exception: there was an error while executing there was an error parsing PhyML stats file: Stats file does not exist. Please check if PhyML is working. Model................................ : WAG+G Number of parameters............... : 54 (1 + 53 branch length estimates) Model optimization exception: there was an error while executing there was an error parsing PhyML stats file: Stats file does not exist. Please check if PhyML is working. Model................................ : WAG+G+F Number of parameters............... : 73 (20 + 53 branch length estimates) Model optimization exception: there was an error while executing there was an error parsing PhyML stats file: Stats file does not exist. Please check if PhyML is working. Model................................ : WAG+I+G Number of parameters............... : 55 (2 + 53 branch length estimates) Model optimization exception: there was an error while executing there was an error parsing PhyML stats file: Stats file does not exist. Please check if PhyML is working. Model................................ : WAG+I+G+F Number of parameters............... : 74 (21 + 53 branch length estimates) Model optimization exception: there was an error while executing there was an error parsing PhyML stats file: Stats file does not exist. Please check if PhyML is working. Model................................ : RtREV Number of parameters............... : 53 (0 + 53 branch length estimates) Model optimization exception: there was an error while executing there was an error parsing PhyML stats file: Stats file does not exist. Please check if PhyML is working. Model................................ : RtREV+F Number of parameters............... : 72 (19 + 53 branch length estimates) Model optimization exception: there was an error while executing there was an error parsing PhyML stats file: Stats file does not exist. Please check if PhyML is working. Model................................ : RtREV+I Number of parameters............... : 54 (1 + 53 branch length estimates) Model optimization exception: there was an error while executing there was an error parsing PhyML stats file: Stats file does not exist. Please check if PhyML is working. Model................................ : RtREV+I+F Number of parameters............... : 73 (20 + 53 branch length estimates) Model optimization exception: there was an error while executing there was an error parsing PhyML stats file: Stats file does not exist. Please check if PhyML is working. Model................................ : RtREV+G Number of parameters............... : 54 (1 + 53 branch length estimates) Model optimization exception: there was an error while executing there was an error parsing PhyML stats file: Stats file does not exist. Please check if PhyML is working. Model................................ : RtREV+G+F Number of parameters............... : 73 (20 + 53 branch length estimates) Model optimization exception: there was an error while executing there was an error parsing PhyML stats file: Stats file does not exist. Please check if PhyML is working. Model................................ : RtREV+I+G Number of parameters............... : 55 (2 + 53 branch length estimates) Model optimization exception: there was an error while executing there was an error parsing PhyML stats file: Stats file does not exist. Please check if PhyML is working. Model................................ : RtREV+I+G+F Number of parameters............... : 74 (21 + 53 branch length estimates) Model optimization exception: there was an error while executing there was an error parsing PhyML stats file: Stats file does not exist. Please check if PhyML is working. Model................................ : CpREV Number of parameters............... : 53 (0 + 53 branch length estimates) Model optimization exception: there was an error while executing there was an error parsing PhyML stats file: Stats file does not exist. Please check if PhyML is working. Model................................ : CpREV+F Number of parameters............... : 72 (19 + 53 branch length estimates) Model optimization exception: there was an error while executing there was an error parsing PhyML stats file: Stats file does not exist. Please check if PhyML is working. Model................................ : CpREV+I Number of parameters............... : 54 (1 + 53 branch length estimates) Model optimization exception: there was an error while executing there was an error parsing PhyML stats file: Stats file does not exist. Please check if PhyML is working. Model................................ : CpREV+I+F Number of parameters............... : 73 (20 + 53 branch length estimates) Model optimization exception: there was an error while executing there was an error parsing PhyML stats file: Stats file does not exist. Please check if PhyML is working. Model................................ : CpREV+G Number of parameters............... : 54 (1 + 53 branch length estimates) Model optimization exception: there was an error while executing there was an error parsing PhyML stats file: Stats file does not exist. Please check if PhyML is working. Model................................ : CpREV+G+F Number of parameters............... : 73 (20 + 53 branch length estimates) Model optimization exception: there was an error while executing there was an error parsing PhyML stats file: Stats file does not exist. Please check if PhyML is working. Model................................ : CpREV+I+G Number of parameters............... : 55 (2 + 53 branch length estimates) Model optimization exception: there was an error while executing there was an error parsing PhyML stats file: Stats file does not exist. Please check if PhyML is working. Model................................ : CpREV+I+G+F Number of parameters............... : 74 (21 + 53 branch length estimates) Model optimization exception: there was an error while executing there was an error parsing PhyML stats file: Stats file does not exist. Please check if PhyML is working. Model................................ : Blosum62 Number of parameters............... : 53 (0 + 53 branch length estimates) Model optimization exception: there was an error while executing there was an error parsing PhyML stats file: Stats file does not exist. Please check if PhyML is working. Model................................ : Blosum62+F Number of parameters............... : 72 (19 + 53 branch length estimates) Model optimization exception: there was an error while executing there was an error parsing PhyML stats file: Stats file does not exist. Please check if PhyML is working. Model................................ : Blosum62+I Number of parameters............... : 54 (1 + 53 branch length estimates) Model optimization exception: there was an error while executing there was an error parsing PhyML stats file: Stats file does not exist. Please check if PhyML is working. Model................................ : Blosum62+I+F Number of parameters............... : 73 (20 + 53 branch length estimates) Model optimization exception: there was an error while executing there was an error parsing PhyML stats file: Stats file does not exist. Please check if PhyML is working. Model................................ : Blosum62+G Number of parameters............... : 54 (1 + 53 branch length estimates) Model optimization exception: there was an error while executing there was an error parsing PhyML stats file: Stats file does not exist. Please check if PhyML is working. Model................................ : Blosum62+G+F Number of parameters............... : 73 (20 + 53 branch length estimates) Model optimization exception: there was an error while executing there was an error parsing PhyML stats file: Stats file does not exist. Please check if PhyML is working. Model................................ : Blosum62+I+G Number of parameters............... : 55 (2 + 53 branch length estimates) Model optimization exception: there was an error while executing there was an error parsing PhyML stats file: Stats file does not exist. Please check if PhyML is working. Model................................ : Blosum62+I+G+F Number of parameters............... : 74 (21 + 53 branch length estimates) Model optimization exception: there was an error while executing there was an error parsing PhyML stats file: Stats file does not exist. Please check if PhyML is working. Model................................ : VT Number of parameters............... : 53 (0 + 53 branch length estimates) Model optimization exception: there was an error while executing there was an error parsing PhyML stats file: Stats file does not exist. Please check if PhyML is working. Model................................ : VT+F Number of parameters............... : 72 (19 + 53 branch length estimates) Model optimization exception: there was an error while executing there was an error parsing PhyML stats file: Stats file does not exist. Please check if PhyML is working. Model................................ : VT+I Number of parameters............... : 54 (1 + 53 branch length estimates) Model optimization exception: there was an error while executing there was an error parsing PhyML stats file: Stats file does not exist. Please check if PhyML is working. Model................................ : VT+I+F Number of parameters............... : 73 (20 + 53 branch length estimates) Model optimization exception: there was an error while executing there was an error parsing PhyML stats file: Stats file does not exist. Please check if PhyML is working. Model................................ : VT+G Number of parameters............... : 54 (1 + 53 branch length estimates) Model optimization exception: there was an error while executing there was an error parsing PhyML stats file: Stats file does not exist. Please check if PhyML is working. Model................................ : VT+G+F Number of parameters............... : 73 (20 + 53 branch length estimates) Model optimization exception: there was an error while executing there was an error parsing PhyML stats file: Stats file does not exist. Please check if PhyML is working. Model................................ : VT+I+G Number of parameters............... : 55 (2 + 53 branch length estimates) Model optimization exception: there was an error while executing there was an error parsing PhyML stats file: Stats file does not exist. Please check if PhyML is working. Model................................ : VT+I+G+F Number of parameters............... : 74 (21 + 53 branch length estimates) Model optimization exception: there was an error while executing there was an error parsing PhyML stats file: Stats file does not exist. Please check if PhyML is working. Model................................ : HIVb Number of parameters............... : 53 (0 + 53 branch length estimates) Model optimization exception: there was an error while executing there was an error parsing PhyML stats file: Stats file does not exist. Please check if PhyML is working. Model................................ : HIVb+F Number of parameters............... : 72 (19 + 53 branch length estimates) Model optimization exception: there was an error while executing there was an error parsing PhyML stats file: Stats file does not exist. Please check if PhyML is working. Model................................ : HIVb+I Number of parameters............... : 54 (1 + 53 branch length estimates) Model optimization exception: there was an error while executing there was an error parsing PhyML stats file: Stats file does not exist. Please check if PhyML is working. Model................................ : HIVb+I+F Number of parameters............... : 73 (20 + 53 branch length estimates) Model optimization exception: there was an error while executing there was an error parsing PhyML stats file: Stats file does not exist. Please check if PhyML is working. Model................................ : HIVb+G Number of parameters............... : 54 (1 + 53 branch length estimates) Model optimization exception: there was an error while executing there was an error parsing PhyML stats file: Stats file does not exist. Please check if PhyML is working. Model................................ : HIVb+G+F Number of parameters............... : 73 (20 + 53 branch length estimates) Model optimization exception: there was an error while executing there was an error parsing PhyML stats file: Stats file does not exist. Please check if PhyML is working. Model................................ : HIVb+I+G Number of parameters............... : 55 (2 + 53 branch length estimates) Model optimization exception: there was an error while executing there was an error parsing PhyML stats file: Stats file does not exist. Please check if PhyML is working. Model................................ : HIVb+I+G+F Number of parameters............... : 74 (21 + 53 branch length estimates) Model optimization exception: there was an error while executing there was an error parsing PhyML stats file: Stats file does not exist. Please check if PhyML is working. Model................................ : HIVw Number of parameters............... : 53 (0 + 53 branch length estimates) Model optimization exception: there was an error while executing there was an error parsing PhyML stats file: Stats file does not exist. Please check if PhyML is working. Model................................ : HIVw+F Number of parameters............... : 72 (19 + 53 branch length estimates) Model optimization exception: there was an error while executing there was an error parsing PhyML stats file: Stats file does not exist. Please check if PhyML is working. Model................................ : HIVw+I Number of parameters............... : 54 (1 + 53 branch length estimates) Model optimization exception: there was an error while executing there was an error parsing PhyML stats file: Stats file does not exist. Please check if PhyML is working. Model................................ : HIVw+I+F Number of parameters............... : 73 (20 + 53 branch length estimates) Model optimization exception: there was an error while executing there was an error parsing PhyML stats file: Stats file does not exist. Please check if PhyML is working. Model................................ : HIVw+G Number of parameters............... : 54 (1 + 53 branch length estimates) Model optimization exception: there was an error while executing there was an error parsing PhyML stats file: Stats file does not exist. Please check if PhyML is working. Model................................ : HIVw+G+F Number of parameters............... : 73 (20 + 53 branch length estimates) Model optimization exception: there was an error while executing there was an error parsing PhyML stats file: Stats file does not exist. Please check if PhyML is working. Model................................ : HIVw+I+G Number of parameters............... : 55 (2 + 53 branch length estimates) Model optimization exception: there was an error while executing there was an error parsing PhyML stats file: Stats file does not exist. Please check if PhyML is working. Model................................ : HIVw+I+G+F Number of parameters............... : 74 (21 + 53 branch length estimates) Model optimization exception: there was an error while executing there was an error parsing PhyML stats file: Stats file does not exist. Please check if PhyML is working. Model................................ : FLU Number of parameters............... : 53 (0 + 53 branch length estimates) Model optimization exception: there was an error while executing there was an error parsing PhyML stats file: Stats file does not exist. Please check if PhyML is working. Model................................ : FLU+F Number of parameters............... : 72 (19 + 53 branch length estimates) Model optimization exception: there was an error while executing there was an error parsing PhyML stats file: Stats file does not exist. Please check if PhyML is working. Model................................ : FLU+I Number of parameters............... : 54 (1 + 53 branch length estimates) Model optimization exception: there was an error while executing there was an error parsing PhyML stats file: Stats file does not exist. Please check if PhyML is working. Model................................ : FLU+I+F Number of parameters............... : 73 (20 + 53 branch length estimates) Model optimization exception: there was an error while executing there was an error parsing PhyML stats file: Stats file does not exist. Please check if PhyML is working. Model................................ : FLU+G Number of parameters............... : 54 (1 + 53 branch length estimates) Model optimization exception: there was an error while executing there was an error parsing PhyML stats file: Stats file does not exist. Please check if PhyML is working. Model................................ : FLU+G+F Number of parameters............... : 73 (20 + 53 branch length estimates) Model optimization exception: there was an error while executing there was an error parsing PhyML stats file: Stats file does not exist. Please check if PhyML is working. Model................................ : FLU+I+G Number of parameters............... : 55 (2 + 53 branch length estimates) Model optimization exception: there was an error while executing there was an error parsing PhyML stats file: Stats file does not exist. Please check if PhyML is working. Model................................ : FLU+I+G+F Number of parameters............... : 74 (21 + 53 branch length estimates) ************************************************************ Date : Tue Oct 26 10:14:30 UTC 2021 Runtime: 0h:03:07 Lk not initialized autopkgtest [10:14:30]: test run-unit-test
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