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JobID: 1603071500201648

***  drug dosing study in liver tissue  ***

  Metabolites  |  Samples  |  Quality Check  |  PCA  |  Kendall  |  Hypothesis test  |  Logs  |  Input data  |  Download results  

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Running METAP SERVER
Mon Mar  7 15:02:45 CET 2016
ID=1603071500201648
/home/metap2/exec:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
/home/metap2/data
+ echo 'we are here'
we are here
+ pwd
/home/metap2/public_html/users/1603071500201648
+ hostname
metap
+ uname -a
Linux metap 3.13.0-76-generic #120-Ubuntu SMP Mon Jan 18 15:59:10 UTC 2016 x86_64 x86_64 x86_64 GNU/...
+ echo 'this is the environment'
this is the environment
+ env
RATIOS=n
OUTLIER=n
MISSING=n
DATADIR=/home/metap2/data
SHELL=/bin/sh
JOBID=drug dosing study in liver tissue
REFERENCE=n
PATH=/home/metap2/exec:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
PWD=/home/metap2/public_html/users/1603071500201648
PRIVAT=0
LANG=en_US.UTF-8
SHLVL=1
HOME=/home/metap2
ID=1603071500201648
DEL_METABS=n
FORMAT=csv_kegg
LOGNAME=metap2
EMAIL=mail
USERID=mail
DEVELOPT=
_=/usr/bin/env
+ echo 'this is a first R script that works on the input data'
this is a first R script that works on the input data
+ '[' '' = werner ']'
+ '[' '' = karsten ']'
+ '[' '' = gabi ']'
+ '[' '' = elisabeth ']'
+ process_metaP_data.R
RUNNING /home/metap2/exec/process_metaP_data.R
Use of uninitialized value $out0 in substitution (s///) at /home/metap2/exec/readAux.pl line 66.
Use of uninitialized value $out0 in substitution (s///) at /home/metap2/exec/readAux.pl line 67.
Use of uninitialized value in transliteration (tr///) at /home/metap2/exec/readAux.pl line 68.
Use of uninitialized value $out0 in concatenation (.) or string at /home/metap2/exec/readAux.pl line...
Use of uninitialized value $max_length in numeric lt (<) at /home/metap2/exec/readAux.pl line 71.
-rw-rw-r-- 1 metap2 metap2 454176 Mar  7 15:06 .R.Rout
  adding: kendall.csv (deflated 57%)
  adding: PCADAY_PC1_PC3.map (deflated 78%)
  adding: PCADAY.pdf (deflated 81%)
  adding: PCA_PC1_PC3.map (deflated 78%)
  adding: summary.csv (deflated 49%)
  adding: PCADAY_PC1_PC3.png (deflated 16%)
  adding: colsToMark.x.csv (deflated 65%)
  adding: PCAGROUP_PC2_PC3.png (deflated 15%)
  adding: phenotypes.csv (deflated 70%)
  adding: kendall.pdf (deflated 84%)
  adding: PCADAY_propOfVar.png (deflated 12%)
  adding: data_all.csv (deflated 51%)
  adding: PCADAY_PC1_PC2.map (deflated 77%)
  adding: PCA_PC1_PC2.png (deflated 19%)
  adding: processing_log.txt (deflated 57%)
  adding: options (deflated 35%)
  adding: colsToMark.csv (deflated 14%)
  adding: PCADOSE_MG_KG_PC1_PC2.map (deflated 77%)
  adding: pValuesForAllMetabolites__DAY.csv (deflated 56%)
  adding: phenotypes_numeric.csv (deflated 61%)
  adding: PCAGROUP_propOfVar.png (deflated 12%)
  adding: pValuesForAllMetabolites__GROUP.csv (deflated 55%)
  adding: PCAGROUP_PC2_PC3.map (deflated 77%)
  adding: PCA_PC1_PC2.map (deflated 77%)
  adding: PCA_PC2_PC3.map (deflated 78%)
  adding: hypothesisTests_complete_data.pdf (deflated 88%)
  adding: PCADOSE_MG_KG_PC1_PC3.png (deflated 16%)
  adding: bonferroni.csv (deflated 28%)
  adding: rowsToMark.csv (deflated 72%)
  adding: metabNamesMapping.csv (deflated 69%)
  adding: PCA.pdf (deflated 81%)
  adding: out_params.txt (stored 0%)
  adding: PCAGROUP_PC1_PC3.map (deflated 78%)
  adding: PCADAY_PC1_PC2.png (deflated 19%)
  adding: input (deflated 50%)
  adding: data.csv (deflated 51%)
  adding: phenotypes.txt (deflated 71%)
  adding: phenotypes_for_QC.csv (deflated 51%)
  adding: histograms.pdf (deflated 90%)
  adding: pValuesForAllMetabolites__DOSE_MG_KG.csv (deflated 59%)
  adding: PCADOSE_MG_KG_PC2_PC3.png (deflated 16%)
  adding: barplots/X1.stearoyl.sn.glycero.3.phosphocholine_barplot_WEIGHT_MG.png (deflated 10%)
  adding: barplots/X2.aminobutyrate_barplot_DAY.png (deflated 18%)
  adding: barplots/X2..deoxyinosine_barplot_DOSE_MG_KG.png (deflated 20%)
  adding: barplots/uracil_barplot_WEIGHT_MG.png (deflated 9%)
  adding: barplots/tauro.beta.muricholate_barplot_WEIGHT_MG.png (deflated 11%)
  adding: barplots/X3.indoxyl.sulfate_barplot_DOSE_MG_KG.png (deflated 20%)
  adding: barplots/maltotriose_barplot_DAY.png (deflated 23%)
  adding: barplots/cis.10.heptadecenoate_barplot_GROUP.png (deflated 20%)
  adding: barplots/uracil_barplot_DOSE_MG_KG.png (deflated 19%)
  adding: barplots/pentadecanoate..15.0._barplot_DOSE_MG_KG.png (deflated 21%)
  adding: barplots/xanthine_barplot.map (deflated 79%)
  adding: barplots/squalene_barplot_GROUP.png (deflated 17%)
  adding: barplots/linoleoylglycerol..monolinolein._barplot_DOSE_MG_KG.png (deflated 15%)
  adding: barplots/phosphate_barplot_DAY.png (deflated 21%)
  adding: barplots/beta.muricholate_barplot.map (deflated 79%)
  adding: barplots/myo.inositol_barplot.map (deflated 79%)
  adding: barplots/caprylate..8.0._barplot.map (deflated 79%)
  adding: barplots/pyrophosphate..PPi._barplot_WEIGHT_MG.png (deflated 10%)
  adding: barplots/pipecolate_barplot_DOSE_MG_KG.png (deflated 25%)
  adding: barplots/X1.heptadecanoyl.sn.3.phosphocholine_barplot_WEIGHT_MG.png (deflated 11%)
  adding: barplots/creatine_barplot_WEIGHT_MG.png (deflated 9%)
  adding: barplots/xanthine_barplot_GROUP.png (deflated 20%)
  adding: barplots/eicosenoate..9.or.11.cis.or.trans._barplot.map (deflated 78%)
  adding: barplots/trigonelline..N..methylnicotinate._barplot_GROUP.png (deflated 22%)
  adding: barplots/X1.Oleoyl.sn.glycero.3.phosphocholine_barplot_GROUP.png (deflated 20%)
  adding: barplots/asparagine_barplot_GROUP.png (deflated 20%)
  adding: barplots/G60_sbarplot.png (deflated 23%)
  adding: barplots/xanthosine_barplot.png (deflated 27%)
  adding: barplots/fructose_barplot_GROUP.png (deflated 17%)
  adding: barplots/G70_4keggColoring.csv (deflated 75%)
  adding: barplots/nicotinamide.ribonucleotide..NMN._barplot_DOSE_MG_KG.png (deflated 25%)
  adding: barplots/threonine_barplot.map (deflated 79%)
  adding: barplots/phosphopantetheine_barplot_DOSE_MG_KG.png (deflated 26%)
  adding: barplots/G59_sbarplot.map (deflated 81%)
  adding: barplots/guanosine.5...monophosphate..GMP._barplot.png (deflated 27%)
  adding: barplots/valine_barplot.map (deflated 79%)
  adding: barplots/chenodeoxycholate_barplot_WEIGHT_MG.png (deflated 8%)
  adding: barplots/pentadecanoate..15.0._barplot.png (deflated 24%)
  adding: barplots/stearate..18.0._barplot_WEIGHT_MG.png (deflated 10%)
  adding: barplots/xanthosine_barplot_DOSE_MG_KG.png (deflated 21%)
  adding: barplots/campesterol_barplot.png (deflated 25%)
  adding: barplots/X4.guanidinobutanoate_barplot.png (deflated 27%)
  adding: barplots/G71_4keggColoring.csv (deflated 74%)
  adding: barplots/ophthalmate._barplot.map (deflated 79%)
  adding: barplots/docosahexaenoate..DHA.22.6.n.3.._barplot_WEIGHT_MG.png (deflated 8%)
  adding: barplots/serine_barplot.png (deflated 24%)
  adding: barplots/mannose_barplot.png (deflated 23%)
  adding: barplots/glycerophosphorylcholine..GPC._barplot_GROUP.png (deflated 21%)
  adding: barplots/arachidonate..20.4.n.6.._barplot_WEIGHT_MG.png (deflated 9%)
  adding: barplots/cytidine_barplot_WEIGHT_MG.png (deflated 11%)
  adding: barplots/G96_4keggColoring.csv (deflated 74%)
  adding: barplots/cis.10.heptadecenoate_barplot.map (deflated 78%)
  adding: barplots/malate_barplot_DAY.png (deflated 21%)
  adding: barplots/X5.oxoproline_barplot_DAY.png (deflated 20%)
  adding: barplots/linoleoylglycerol..monolinolein._barplot_GROUP.png (deflated 15%)
  adding: barplots/gamma.glutamylleucine_barplot_WEIGHT_MG.png (deflated 9%)
  adding: barplots/X6.oxolithocholate_barplot_DAY.png (deflated 23%)
  adding: barplots/trigonelline..N..methylnicotinate._barplot_DAY.png (deflated 21%)
  adding: barplots/glycolithocholate_barplot.map (deflated 78%)
  adding: barplots/saccharopine_barplot.png (deflated 22%)
  adding: barplots/tetrahydrobiopterin_barplot.map (deflated 79%)
  adding: barplots/adenosine_barplot_GROUP.png (deflated 18%)
  adding: barplots/stearidonate_barplot_GROUP.png (deflated 20%)
  adding: barplots/oleate.18.1.n.9.._barplot_WEIGHT_MG.png (deflated 10%)
  adding: barplots/gamma.glutamylleucine_barplot_GROUP.png (deflated 22%)
  adding: barplots/G78_sbarplot.map (deflated 81%)
  adding: barplots/xylitol_barplot_DOSE_MG_KG.png (deflated 19%)
  adding: barplots/inositol.1.phosphate..I1P._barplot.png (deflated 22%)
  adding: barplots/n.3.DPA..22.5.n.3.._barplot.png (deflated 20%)
  adding: barplots/aspartate_barplot.png (deflated 26%)
  adding: barplots/maltotriose_barplot_DOSE_MG_KG.png (deflated 28%)
  adding: barplots/G94_sbarplot.png (deflated 23%)
  adding: barplots/ascorbate..Vitamin.C._barplot_WEIGHT_MG.png (deflated 11%)
  adding: barplots/X2.linoleoyl.glycerol_barplot.png (deflated 24%)
  adding: barplots/glutathione.oxidized..GSSG._barplot.map (deflated 78%)
  adding: barplots/margarate..17.0._barplot_WEIGHT_MG.png (deflated 11%)
  adding: barplots/n.3.DPA..22.5.n.3.._barplot_DOSE_MG_KG.png (deflated 19%)
  adding: barplots/pyrophosphate..PPi._barplot_GROUP.png (deflated 21%)
  adding: barplots/X5.methylthioadenosine..MTA._barplot.png (deflated 24%)
  adding: barplots/glutamine_barplot.map (deflated 79%)
  adding: barplots/creatine_barplot_GROUP.png (deflated 18%)
  adding: barplots/phosphopantetheine_barplot.png (deflated 31%)
  adding: barplots/allantoin_barplot_GROUP.png (deflated 18%)
  adding: barplots/glycochenodeoxycholate_barplot.map (deflated 79%)
  adding: barplots/X6.oxolithocholate_barplot_WEIGHT_MG.png (deflated 11%)
  adding: barplots/myristoleate..14.1.n.5.._barplot_GROUP.png (deflated 20%)
  adding: barplots/betaine.aldehyde_barplot_WEIGHT_MG.png (deflated 10%)
  adding: barplots/myristoleate..14.1.n.5.._barplot_DAY.png (deflated 21%)
  adding: barplots/X3.phosphoglycerate_barplot_DOSE_MG_KG.png (deflated 20%)
  adding: barplots/riboflavin..Vitamin.B2._barplot_WEIGHT_MG.png (deflated 8%)
  adding: barplots/hypotaurine_barplot.png (deflated 22%)
  adding: barplots/taurodeoxycholic.acid_barplot.map (deflated 79%)
  adding: barplots/hypotaurine_barplot.map (deflated 79%)
  adding: barplots/ophthalmate._barplot_DOSE_MG_KG.png (deflated 19%)
  adding: barplots/alpha.tocopherol_barplot_WEIGHT_MG.png (deflated 9%)
  adding: barplots/squalene_barplot_WEIGHT_MG.png (deflated 10%)
  adding: barplots/taurocholate_barplot_DAY.png (deflated 18%)
  adding: barplots/taurolithocholate_barplot.png (deflated 24%)
  adding: barplots/leucine_barplot_GROUP.png (deflated 21%)
  adding: barplots/F.047.25._barplot_GROUP.png (deflated 21%)
  adding: barplots/G59_4keggColoring.csv (deflated 74%)
  adding: barplots/X12.dipalmitoylglycerol..DAG._barplot_DAY.png (deflated 19%)
  adding: barplots/alanine_barplot_WEIGHT_MG.png (deflated 9%)
  adding: barplots/deoxycholate_barplot_DAY.png (deflated 23%)
  adding: barplots/glutamate_barplot.map (deflated 79%)
  adding: barplots/ornithine_barplot_DOSE_MG_KG.png (deflated 19%)
  adding: barplots/glutathione.oxidized..GSSG._barplot_DAY.png (deflated 21%)
  adding: barplots/X5.oxoproline_barplot_WEIGHT_MG.png (deflated 10%)
  adding: barplots/linoleoylglycerol..monolinolein._barplot.png (deflated 19%)
  adding: barplots/X3.phosphoglycerate_barplot_GROUP.png (deflated 20%)
  adding: barplots/creatine_barplot.png (deflated 21%)
  adding: barplots/trans.4.hydroxyproline_barplot.png (deflated 25%)
  adding: barplots/G67_sbarplot.png (deflated 23%)
  adding: barplots/spermidine_barplot.map (deflated 79%)
  adding: barplots/nonadecanoate..19.0._barplot_WEIGHT_MG.png (deflated 11%)
  adding: barplots/linoleate..18.2.n.6.._barplot_GROUP.png (deflated 18%)
  adding: barplots/thymine_barplot.png (deflated 24%)
  adding: barplots/G78_4keggColoring.csv (deflated 75%)
  adding: barplots/arachidonate..20.4.n.6.._barplot.map (deflated 79%)
  adding: barplots/gamma.glutamylglutamate_barplot_GROUP.png (deflated 28%)
  adding: barplots/malate_barplot.png (deflated 24%)
  adding: barplots/nonadecanoate..19.0._barplot_DOSE_MG_KG.png (deflated 19%)
  adding: barplots/caprate..10.0._barplot.map (deflated 79%)
  adding: barplots/beta.alanine_barplot_DOSE_MG_KG.png (deflated 18%)
  adding: barplots/fructose_barplot_DOSE_MG_KG.png (deflated 18%)
  adding: barplots/hypoxanthine_barplot_DOSE_MG_KG.png (deflated 23%)
  adding: barplots/methionine_barplot.map (deflated 79%)
  adding: barplots/taurodeoxycholic.acid_barplot_DOSE_MG_KG.png (deflated 22%)
  adding: barplots/creatinine_barplot_DAY.png (deflated 20%)
  adding: barplots/riboflavin..Vitamin.B2._barplot.png (deflated 22%)
  adding: barplots/N.acetylalanine_barplot.map (deflated 78%)
  adding: barplots/X1.stearoyl.sn.glycero.3.phosphocholine_barplot_DOSE_MG_KG.png (deflated 24%)
  adding: barplots/glycerol.2.phosphate_barplot.png (deflated 29%)
  adding: barplots/glycylvaline_barplot_DOSE_MG_KG.png (deflated 22%)
  adding: barplots/taurodeoxycholic.acid_barplot_WEIGHT_MG.png (deflated 12%)
  adding: barplots/hypoxanthine_barplot.map (deflated 78%)
  adding: barplots/linoleate..18.2.n.6.._barplot_DAY.png (deflated 18%)
  adding: barplots/cytidine_barplot_DAY.png (deflated 19%)
  adding: barplots/nicotinamide.adenine.dinucleotide..NAD.._barplot_DOSE_MG_KG.png (deflated 24%)
  adding: barplots/saccharopine_barplot_DAY.png (deflated 20%)
  adding: barplots/cis.5.dodecenoate_barplot.map (deflated 79%)
  adding: barplots/glutathione.oxidized..GSSG._barplot_GROUP.png (deflated 24%)
  adding: barplots/histidine_barplot_DOSE_MG_KG.png (deflated 21%)
  adding: barplots/dihomolinolenate..20.2.n.6.._barplot_GROUP.png (deflated 20%)
  adding: barplots/pseudouridine_barplot_WEIGHT_MG.png (deflated 11%)
  adding: barplots/G64_sbarplot.png (deflated 23%)
  adding: barplots/stearidonate_barplot_DAY.png (deflated 20%)
  adding: barplots/methionine_barplot_WEIGHT_MG.png (deflated 10%)
  adding: barplots/taurolithocholate_barplot_DOSE_MG_KG.png (deflated 21%)
  adding: barplots/X3.indoxyl.sulfate_barplot.png (deflated 22%)
  adding: barplots/X3.phosphoglycerate_barplot_WEIGHT_MG.png (deflated 10%)
  adding: barplots/linoleate..18.2.n.6.._barplot_WEIGHT_MG.png (deflated 10%)
  adding: barplots/eicosenoate..9.or.11.cis.or.trans._barplot.png (deflated 21%)
  adding: barplots/maltose_barplot.png (deflated 24%)
  adding: barplots/ribose_barplot_DOSE_MG_KG.png (deflated 22%)
  adding: barplots/nicotinamide.adenine.dinucleotide..NAD.._barplot_WEIGHT_MG.png (deflated 11%)
  adding: barplots/betaine.aldehyde_barplot.png (deflated 23%)
  adding: barplots/tetrahydrobiopterin_barplot_WEIGHT_MG.png (deflated 11%)
  adding: barplots/glycine_barplot_WEIGHT_MG.png (deflated 9%)
  adding: barplots/flavin.adenine.dinucleotide..FAD.._barplot_GROUP.png (deflated 21%)
  adding: barplots/squalene_barplot.map (deflated 79%)
  adding: barplots/glycerol.3.phosphate..G3P._barplot_WEIGHT_MG.png (deflated 11%)
  adding: barplots/G90_4keggColoring.csv (deflated 74%)
  adding: barplots/undecanoate..11.0._barplot.png (deflated 26%)
  adding: barplots/lactate_barplot_WEIGHT_MG.png (deflated 10%)
  adding: barplots/glycochenodeoxycholate_barplot_WEIGHT_MG.png (deflated 12%)
  adding: barplots/alpha.tocopherol_barplot.png (deflated 21%)
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  adding: barplots/xanthine_barplot_WEIGHT_MG.png (deflated 11%)
  adding: barplots/glycolithocholate_barplot_DOSE_MG_KG.png (deflated 21%)
  adding: barplots/maltose_barplot_DAY.png (deflated 21%)
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  adding: barplots/beta.sitosterol_barplot.png (deflated 22%)
  adding: barplots/glycocholate._barplot.map (deflated 79%)
  adding: barplots/glucarate..saccharate._barplot_DAY.png (deflated 22%)
  adding: barplots/eicosenoate..9.or.11.cis.or.trans._barplot_DOSE_MG_KG.png (deflated 20%)
  adding: barplots/phenylalanine_barplot_DOSE_MG_KG.png (deflated 18%)
  adding: barplots/chenodeoxycholate_barplot_DOSE_MG_KG.png (deflated 20%)
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  adding: barplots/beta.alanine_barplot.png (deflated 21%)
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  adding: barplots/G91_sbarplot.map (deflated 81%)
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  adding: barplots/X1.heptadecanoyl.sn.3.phosphocholine_barplot_DAY.png (deflated 26%)
  adding: barplots/pipecolate_barplot_WEIGHT_MG.png (deflated 13%)
  adding: barplots/arginine_barplot_GROUP.png (deflated 18%)
  adding: barplots/xanthosine_barplot_WEIGHT_MG.png (deflated 11%)
  adding: barplots/xylitol_barplot_WEIGHT_MG.png (deflated 10%)
  adding: barplots/N.acetylmannosamine_barplot_DOSE_MG_KG.png (deflated 17%)
  adding: barplots/adenosine.5..diphosphate..ADP._barplot_GROUP.png (deflated 22%)
  adding: barplots/oleate.18.1.n.9.._barplot.map (deflated 79%)
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  adding: barplots/myristate..14.0._barplot_DOSE_MG_KG.png (deflated 19%)
  adding: barplots/cholesterol_barplot_WEIGHT_MG.png (deflated 11%)
  adding: barplots/glucose_barplot.map (deflated 79%)
  adding: barplots/G55_sbarplot.png (deflated 22%)
  adding: barplots/dihomo.alpha.linolenate..20.3.n.3.._barplot.map (deflated 79%)
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  adding: barplots/taurochenodeoxycholate_barplot_DOSE_MG_KG.png (deflated 24%)
  adding: barplots/asparagine_barplot.map (deflated 79%)
  adding: barplots/adenosine.5..monophosphate..AMP._barplot_GROUP.png (deflated 20%)
  adding: barplots/adenosine.5..diphosphate..ADP._barplot.map (deflated 78%)
  adding: barplots/arginine_barplot_DOSE_MG_KG.png (deflated 19%)
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  adding: barplots/gamma.glutamyltryptophan_barplot_DAY.png (deflated 22%)
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  adding: barplots/X2..deoxyguanosine_barplot.map (deflated 79%)
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  adding: barplots/X5.oxoproline_barplot.png (deflated 22%)
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  adding: barplots/tryptophan_barplot.png (deflated 27%)
  adding: barplots/glycocholate._barplot_WEIGHT_MG.png (deflated 9%)
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  adding: barplots/trigonelline..N..methylnicotinate._barplot_DOSE_MG_KG.png (deflated 23%)
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  adding: barplots/carnitine_barplot.map (deflated 79%)
  adding: barplots/phosphopantetheine_barplot.map (deflated 79%)
  adding: barplots/dihomolinolenate..20.2.n.6.._barplot.png (deflated 24%)
  adding: barplots/X13c16c.docosadienoate_barplot_GROUP.png (deflated 19%)
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  adding: barplots/arginine_barplot_DAY.png (deflated 17%)
  adding: barplots/glucose_barplot_GROUP.png (deflated 22%)
  adding: barplots/xanthine_barplot_DAY.png (deflated 17%)
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  adding: barplots/glycylproline_barplot_WEIGHT_MG.png (deflated 10%)
  adding: barplots/campesterol_barplot_DAY.png (deflated 18%)
  adding: barplots/kynurenine_barplot_DOSE_MG_KG.png (deflated 21%)
  adding: barplots/urea_barplot_DOSE_MG_KG.png (deflated 19%)
  adding: barplots/glutathione.reduced..GSH._barplot_WEIGHT_MG.png (deflated 11%)
  adding: barplots/X2..deoxyguanosine_barplot_DAY.png (deflated 23%)
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  adding: barplots/margarate..17.0._barplot_GROUP.png (deflated 21%)
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  adding: barplots/pyridoxate_barplot_GROUP.png (deflated 19%)
  adding: barplots/glycylglycine_barplot_WEIGHT_MG.png (deflated 11%)
  adding: barplots/adenosine.5..diphosphate..ADP._barplot_WEIGHT_MG.png (deflated 11%)
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  adding: barplots/spermidine_barplot_DAY.png (deflated 23%)
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  adding: barplots/fructose_barplot_DAY.png (deflated 18%)
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  adding: barplots/G49_sbarplot.png (deflated 23%)
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  adding: barplots/G63_sbarplot.png (deflated 27%)
  adding: barplots/gamma.glutamylglutamate_barplot_WEIGHT_MG.png (deflated 12%)
  adding: barplots/allantoin_barplot_DOSE_MG_KG.png (deflated 19%)
  adding: barplots/hypotaurine_barplot_DOSE_MG_KG.png (deflated 19%)
  adding: barplots/lysine_barplot_DOSE_MG_KG.png (deflated 18%)
  adding: barplots/G71_sbarplot.png (deflated 23%)
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  adding: barplots/glycochenodeoxycholate_barplot_GROUP.png (deflated 23%)
  adding: barplots/cis.5.dodecenoate_barplot_GROUP.png (deflated 21%)
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  adding: barplots/F.045.30._barplot_DOSE_MG_KG.png (deflated 33%)
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  adding: barplots/serine_barplot.map (deflated 79%)
  adding: barplots/stearate..18.0._barplot_DOSE_MG_KG.png (deflated 21%)
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  adding: barplots/oleate.18.1.n.9.._barplot_GROUP.png (deflated 17%)
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  adding: barplots/sorbitol..glucitol._barplot_GROUP.png (deflated 25%)
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  adding: barplots/galactose.1.phosphate_barplot_DOSE_MG_KG.png (deflated 21%)
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  adding: barplots/caprate..10.0._barplot_GROUP.png (deflated 19%)
  adding: barplots/leucine_barplot_WEIGHT_MG.png (deflated 12%)
  adding: barplots/linoleoylglycerol..monolinolein._barplot_WEIGHT_MG.png (deflated 9%)
  adding: barplots/threonine_barplot.png (deflated 21%)
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  adding: barplots/ophthalmate._barplot_WEIGHT_MG.png (deflated 11%)
  adding: barplots/dihomo.alpha.linolenate..20.3.n.3.._barplot_GROUP.png (deflated 16%)
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  adding: barplots/myo.inositol_barplot_DOSE_MG_KG.png (deflated 19%)
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  adding: barplots/flavin.adenine.dinucleotide..FAD.._barplot.png (deflated 24%)
  adding: barplots/X3.hydroxybutyrate..BHBA._barplot_DAY.png (deflated 21%)
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  adding: barplots/thymine_barplot_GROUP.png (deflated 20%)
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  adding: barplots/G87_sbarplot.png (deflated 23%)
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  adding: barplots/glycerol_barplot_DAY.png (deflated 19%)
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  adding: barplots/linoleoylglycerol..monolinolein._barplot_DAY.png (deflated 16%)
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  adding: barplots/methionine_barplot_GROUP.png (deflated 19%)
  adding: barplots/phosphoenolpyruvate..PEP._barplot_DOSE_MG_KG.png (deflated 21%)
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  adding: barplots/taurocholate_barplot_DOSE_MG_KG.png (deflated 20%)
  adding: barplots/X13c16c.docosadienoate_barplot_DOSE_MG_KG.png (deflated 20%)
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  adding: barplots/urea_barplot_DAY.png (deflated 17%)
  adding: barplots/glutamine_barplot_GROUP.png (deflated 19%)
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  adding: barplots/ophthalmate._barplot_GROUP.png (deflated 18%)
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  adding: barplots/X2..deoxycytidine_barplot_DOSE_MG_KG.png (deflated 20%)
  adding: barplots/inosine_barplot_DAY.png (deflated 16%)
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  adding: barplots/X15.anhydroglucitol..15.AG._barplot_WEIGHT_MG.png (deflated 9%)
  adding: barplots/cholate_barplot_DOSE_MG_KG.png (deflated 25%)
  adding: barplots/X2..deoxycytidine_barplot_DAY.png (deflated 19%)
  adding: barplots/tyrosine_barplot_DOSE_MG_KG.png (deflated 20%)
  adding: barplots/palmitoleate..16.1.n.7.._barplot_GROUP.png (deflated 16%)
  adding: barplots/phosphopantetheine_barplot_DAY.png (deflated 24%)
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  adding: barplots/glycylvaline_barplot.map (deflated 79%)
  adding: barplots/phenylalanine_barplot_GROUP.png (deflated 19%)
  adding: barplots/urate_barplot_GROUP.png (deflated 18%)
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  adding: barplots/creatine_barplot_DOSE_MG_KG.png (deflated 19%)
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  adding: barplots/glycine_barplot_DAY.png (deflated 15%)
  adding: barplots/tetrahydrobiopterin_barplot_DAY.png (deflated 20%)
  adding: barplots/histidine_barplot_DAY.png (deflated 18%)
  adding: barplots/X2.aminobutyrate_barplot_GROUP.png (deflated 16%)
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  adding: barplots/pyrophosphate..PPi._barplot_DAY.png (deflated 22%)
  adding: barplots/gulono.14.lactone_barplot.png (deflated 27%)
  adding: barplots/kynurenine_barplot_DAY.png (deflated 22%)
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  adding: barplots/threonine_barplot_WEIGHT_MG.png (deflated 10%)
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  adding: barplots/valine_barplot_DOSE_MG_KG.png (deflated 23%)
  adding: barplots/cis.10.heptadecenoate_barplot_DOSE_MG_KG.png (deflated 18%)
  adding: barplots/o.phosphoethanolamine_barplot_GROUP.png (deflated 23%)
  adding: barplots/eicosenoate..9.or.11.cis.or.trans._barplot_DAY.png (deflated 18%)
  adding: barplots/myristate..14.0._barplot.png (deflated 22%)
  adding: barplots/deoxycholate_barplot_WEIGHT_MG.png (deflated 11%)
  adding: barplots/F.047.25._barplot_WEIGHT_MG.png (deflated 11%)
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  adding: barplots/ursodeoxycholate_barplot_DOSE_MG_KG.png (deflated 26%)
  adding: barplots/nicotinamide_barplot_DOSE_MG_KG.png (deflated 22%)
  adding: barplots/adenosine_barplot_WEIGHT_MG.png (deflated 11%)
  adding: barplots/dihomolinolenate..20.2.n.6.._barplot.map (deflated 78%)
  adding: barplots/uracil_barplot_GROUP.png (deflated 18%)
  adding: barplots/asparagine_barplot_DOSE_MG_KG.png (deflated 21%)
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  adding: barplots/malate_barplot_WEIGHT_MG.png (deflated 11%)
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  adding: barplots/glycerophosphorylcholine..GPC._barplot_DAY.png (deflated 21%)
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  adding: barplots/ophthalmate._barplot_DAY.png (deflated 19%)
  adding: barplots/adenosine.5..monophosphate..AMP._barplot_DAY.png (deflated 20%)
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  adding: barplots/glycylproline_barplot_GROUP.png (deflated 18%)
  adding: barplots/proline_barplot_GROUP.png (deflated 17%)
  adding: barplots/taurochenodeoxycholate_barplot_GROUP.png (deflated 22%)
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  adding: barplots/G80_4keggColoring.csv (deflated 74%)
  adding: barplots/G95_sbarplot.map (deflated 81%)
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  adding: barplots/margarate..17.0._barplot.png (deflated 26%)
  adding: barplots/pantothenate_barplot_WEIGHT_MG.png (deflated 9%)
  adding: barplots/X2..deoxyguanosine_barplot_WEIGHT_MG.png (deflated 11%)
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  adding: barplots/alpha.tocopherol_barplot_GROUP.png (deflated 17%)
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  adding: barplots/G73_sbarplot.png (deflated 19%)
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  adding: barplots/N.acetylglucosamine_barplot_DAY.png (deflated 19%)
  adding: barplots/gammaglutamylphenylalanine_barplot.png (deflated 29%)
  adding: barplots/cis.10.heptadecenoate_barplot_DAY.png (deflated 19%)
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  adding: barplots/G53_sbarplot.png (deflated 23%)
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  adding: barplots/adenine_barplot.map (deflated 79%)
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  adding: barplots/X5.methyltetrahydrofolate..5MeTHF._barplot_DAY.png (deflated 17%)
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  adding: barplots/G52_sbarplot.png (deflated 23%)
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  adding: barplots/X5.methylthioadenosine..MTA._barplot_WEIGHT_MG.png (deflated 11%)
  adding: barplots/tryptophan_barplot_DOSE_MG_KG.png (deflated 23%)
  adding: barplots/glutathione.oxidized..GSSG._barplot_DOSE_MG_KG.png (deflated 23%)
  adding: barplots/carnitine_barplot_GROUP.png (deflated 20%)
  adding: barplots/N.acetylalanine_barplot.png (deflated 25%)
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  adding: barplots/propionylcarnitine_barplot.map (deflated 79%)
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  adding: barplots/N.acetylmannosamine_barplot_WEIGHT_MG.png (deflated 9%)
  adding: barplots/X6.oxolithocholate_barplot.png (deflated 27%)
  adding: barplots/palmitate..16.0._barplot_DAY.png (deflated 18%)
  adding: barplots/aspartate_barplot_GROUP.png (deflated 20%)
  adding: barplots/glycochenodeoxycholate_barplot_DAY.png (deflated 21%)
  adding: barplots/glycylglycine_barplot.png (deflated 29%)
  adding: barplots/ribose_barplot_WEIGHT_MG.png (deflated 11%)
  adding: barplots/pantothenate_barplot.png (deflated 23%)
  adding: barplots/glycochenodeoxycholate_barplot_DOSE_MG_KG.png (deflated 27%)
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  adding: barplots/phosphoenolpyruvate..PEP._barplot.png (deflated 22%)
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  adding: barplots/G79_sbarplot.png (deflated 23%)
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  adding: barplots/chenodeoxycholate_barplot_GROUP.png (deflated 17%)
  adding: barplots/nicotinamide.ribonucleotide..NMN._barplot_DAY.png (deflated 22%)
  adding: barplots/fumarate_barplot.map (deflated 79%)
  adding: barplots/caproate..6.0._barplot_WEIGHT_MG.png (deflated 9%)
  adding: barplots/stearate..18.0._barplot_GROUP.png (deflated 19%)
  adding: barplots/carnitine_barplot_WEIGHT_MG.png (deflated 9%)
  adding: barplots/laurate..12.0._barplot_DOSE_MG_KG.png (deflated 19%)
  adding: barplots/cis.5.dodecenoate_barplot_DOSE_MG_KG.png (deflated 23%)
  adding: barplots/threonine_barplot_DAY.png (deflated 21%)
  adding: barplots/G91_sbarplot.png (deflated 21%)
  adding: barplots/allantoin_barplot_DAY.png (deflated 18%)
  adding: barplots/X2.aminoadipate_barplot.png (deflated 29%)
  adding: barplots/propionylcarnitine_barplot_DOSE_MG_KG.png (deflated 21%)
  adding: barplots/alanine_barplot_DOSE_MG_KG.png (deflated 19%)
  adding: barplots/betaine.aldehyde_barplot_DAY.png (deflated 18%)
  adding: barplots/tauro.beta.muricholate_barplot.png (deflated 26%)
  adding: barplots/fumarate_barplot_DAY.png (deflated 18%)
  adding: barplots/cytosine_barplot_WEIGHT_MG.png (deflated 11%)
  adding: barplots/S.methylglutathione_barplot_GROUP.png (deflated 21%)
  adding: barplots/N.acetylglucosamine.6.phosphate_barplot_WEIGHT_MG.png (deflated 10%)
  adding: barplots/alpha.linolenate..18.3.n.3.._barplot_GROUP.png (deflated 18%)
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  adding: barplots/oleate.18.1.n.9.._barplot_DOSE_MG_KG.png (deflated 17%)
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  adding: barplots/spermidine_barplot_GROUP.png (deflated 23%)
  adding: barplots/flavin.adenine.dinucleotide..FAD.._barplot_DAY.png (deflated 18%)
  adding: barplots/G88_sbarplot.map (deflated 81%)
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  adding: barplots/gamma.aminobutyrate..GABA._barplot_DAY.png (deflated 18%)
  adding: barplots/arginine_barplot.png (deflated 29%)
  adding: barplots/creatinine_barplot_WEIGHT_MG.png (deflated 11%)
  adding: barplots/NN.dimethylarginine..ADMA._barplot_WEIGHT_MG.png (deflated 9%)
  adding: barplots/xanthosine_barplot_DAY.png (deflated 21%)
  adding: barplots/lactate_barplot_DOSE_MG_KG.png (deflated 19%)
  adding: barplots/glutamate_barplot_DAY.png (deflated 18%)
  adding: barplots/inositol.1.phosphate..I1P._barplot_GROUP.png (deflated 19%)
  adding: barplots/margarate..17.0._barplot_DAY.png (deflated 21%)
  adding: barplots/nicotinamide.adenine.dinucleotide..NAD.._barplot_GROUP.png (deflated 21%)
  adding: barplots/campesterol_barplot_WEIGHT_MG.png (deflated 9%)
  adding: barplots/serine_barplot_DOSE_MG_KG.png (deflated 19%)
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  adding: barplots/glycocholate._barplot.png (deflated 21%)
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  adding: barplots/isoleucine_barplot_WEIGHT_MG.png (deflated 11%)
  adding: barplots/dihomo.alpha.linolenate..20.3.n.3.._barplot.png (deflated 20%)
  adding: barplots/stearidonate_barplot.map (deflated 79%)
  adding: barplots/citrulline_barplot_GROUP.png (deflated 19%)
  adding: barplots/X3.hydroxybutyrate..BHBA._barplot_GROUP.png (deflated 21%)
  adding: barplots/X4.guanidinobutanoate_barplot_DOSE_MG_KG.png (deflated 24%)
  adding: barplots/X2..deoxyguanosine_barplot_DOSE_MG_KG.png (deflated 22%)
  adding: barplots/proline_barplot.png (deflated 22%)
  adding: barplots/phosphate_barplot_WEIGHT_MG.png (deflated 13%)
  adding: barplots/arachidonate..20.4.n.6.._barplot_DOSE_MG_KG.png (deflated 20%)
  adding: barplots/oleate.18.1.n.9.._barplot_DAY.png (deflated 17%)
  adding: barplots/G94_sbarplot.map (deflated 81%)
  adding: barplots/ascorbate..Vitamin.C._barplot.png (deflated 24%)
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  adding: barplots/glutamate_barplot_GROUP.png (deflated 17%)
  adding: barplots/thymine_barplot_DAY.png (deflated 20%)
  adding: barplots/glycylglycine_barplot_DOSE_MG_KG.png (deflated 23%)
  adding: barplots/methionine_barplot.png (deflated 23%)
  adding: barplots/myo.inositol_barplot_GROUP.png (deflated 17%)
  adding: barplots/gulono.14.lactone_barplot_GROUP.png (deflated 19%)
  adding: barplots/G83_sbarplot.map (deflated 81%)
  adding: barplots/cis.5.dodecenoate_barplot.png (deflated 25%)
  adding: barplots/X5.methyltetrahydrofolate..5MeTHF._barplot_GROUP.png (deflated 18%)
  adding: barplots/G73_4keggColoring.csv (deflated 74%)
  adding: barplots/leucine_barplot_DOSE_MG_KG.png (deflated 21%)
  adding: barplots/ribitol..adonitol._barplot.png (deflated 25%)
  adding: barplots/cholate_barplot_DAY.png (deflated 24%)
  adding: barplots/pyridoxal_barplot_GROUP.png (deflated 19%)
  adding: barplots/G54_sbarplot.map (deflated 81%)
  adding: barplots/G66_sbarplot.png (deflated 24%)
  adding: barplots/acetylcarnitine_barplot.map (deflated 79%)
  adding: barplots/alpha.linolenate..18.3.n.3.._barplot_DAY.png (deflated 20%)
  adding: barplots/gamma.glutamyltryptophan_barplot.png (deflated 25%)
  adding: barplots/taurolithocholate_barplot_DAY.png (deflated 19%)
  adding: barplots/gamma.aminobutyrate..GABA._barplot.png (deflated 23%)
  adding: barplots/X1.palmitoyl.sn.glycero.3.phosphocholine_barplot.map (deflated 79%)
  adding: barplots/X4.guanidinobutanoate_barplot_GROUP.png (deflated 23%)
  adding: barplots/undecanoate..11.0._barplot_DOSE_MG_KG.png (deflated 21%)
  adding: barplots/pyridoxate_barplot_WEIGHT_MG.png (deflated 11%)
  adding: barplots/ribose_barplot_DAY.png (deflated 21%)
  adding: barplots/nicotinamide.riboside._barplot_WEIGHT_MG.png (deflated 11%)
  adding: barplots/betaine_barplot.png (deflated 32%)
  adding: barplots/cysteine_barplot.png (deflated 22%)
  adding: barplots/gammaglutamylphenylalanine_barplot_WEIGHT_MG.png (deflated 10%)
  adding: barplots/aspartate_barplot.map (deflated 79%)
  adding: barplots/G58_sbarplot.png (deflated 22%)
  adding: barplots/glucarate..saccharate._barplot_GROUP.png (deflated 20%)
  adding: barplots/sphingosine_barplot_DAY.png (deflated 18%)
  adding: barplots/X4.guanidinobutanoate_barplot_DAY.png (deflated 21%)
  adding: barplots/X13c16c.docosadienoate_barplot.map (deflated 78%)
  adding: barplots/G55_4keggColoring.csv (deflated 74%)
  adding: barplots/isoleucine_barplot_DOSE_MG_KG.png (deflated 18%)
  adding: barplots/galactose.1.phosphate_barplot.png (deflated 21%)
  adding: barplots/docosahexaenoate..DHA.22.6.n.3.._barplot_DOSE_MG_KG.png (deflated 18%)
  adding: barplots/N.acetylglucosamine_barplot_DOSE_MG_KG.png (deflated 21%)
  adding: barplots/thymine_barplot_DOSE_MG_KG.png (deflated 23%)
  adding: barplots/hyodeoxycholate_barplot_WEIGHT_MG.png (deflated 13%)
  adding: barplots/glycerophosphorylcholine..GPC._barplot.png (deflated 25%)
  adding: barplots/alpha.linolenate..18.3.n.3.._barplot_DOSE_MG_KG.png (deflated 18%)
  adding: barplots/G67_4keggColoring.csv (deflated 74%)
  adding: barplots/taurochenodeoxycholate_barplot_DAY.png (deflated 22%)
  adding: barplots/proline_barplot_DOSE_MG_KG.png (deflated 21%)
  adding: barplots/propionylcarnitine_barplot_DAY.png (deflated 18%)
  adding: barplots/o.phosphoethanolamine_barplot_WEIGHT_MG.png (deflated 10%)
  adding: barplots/X1.heptadecanoyl.sn.3.phosphocholine_barplot_GROUP.png (deflated 26%)
  adding: barplots/X2..deoxyinosine_barplot_WEIGHT_MG.png (deflated 11%)
  adding: barplots/taurocholate_barplot.map (deflated 79%)
  adding: barplots/X15.anhydroglucitol..15.AG._barplot_DOSE_MG_KG.png (deflated 21%)
  adding: barplots/palmitoleate..16.1.n.7.._barplot_WEIGHT_MG.png (deflated 9%)
  adding: barplots/gamma.glutamyltryptophan_barplot_WEIGHT_MG.png (deflated 10%)
  adding: barplots/G74_sbarplot.map (deflated 81%)
  adding: barplots/sphingosine_barplot.png (deflated 22%)
  adding: barplots/N.acetylglucosamine.6.phosphate_barplot.map (deflated 78%)
  adding: barplots/cholate_barplot.png (deflated 29%)
  adding: barplots/hyodeoxycholate_barplot.png (deflated 29%)
  adding: barplots/G93_sbarplot.map (deflated 81%)
  adding: barplots/deoxycholate_barplot_GROUP.png (deflated 23%)
  adding: barplots/beta.sitosterol_barplot.map (deflated 79%)
  adding: barplots/N.acetylmethionine_barplot_GROUP.png (deflated 30%)
  adding: barplots/hypoxanthine_barplot_DAY.png (deflated 22%)
  adding: barplots/G58_sbarplot.map (deflated 81%)
  adding: barplots/myo.inositol_barplot_DAY.png (deflated 17%)
  adding: barplots/phosphoenolpyruvate..PEP._barplot_WEIGHT_MG.png (deflated 11%)
  adding: barplots/uridine_barplot.map (deflated 79%)
  adding: barplots/glucose_barplot_DAY.png (deflated 17%)
  adding: barplots/N.acetylmethionine_barplot.png (deflated 37%)
  adding: barplots/gulono.14.lactone_barplot_WEIGHT_MG.png (deflated 10%)
  adding: barplots/G50_4keggColoring.csv (deflated 75%)
  adding: barplots/pyridoxal_barplot.png (deflated 27%)
  adding: barplots/X2..deoxyguanosine_barplot_GROUP.png (deflated 24%)
  adding: barplots/gamma.glutamylglutamate_barplot_DOSE_MG_KG.png (deflated 28%)
  adding: barplots/F.047.25._barplot_DAY.png (deflated 20%)
  adding: barplots/kynurenine_barplot_WEIGHT_MG.png (deflated 10%)
  adding: barplots/G82_sbarplot.png (deflated 22%)
  adding: barplots/trans.4.hydroxyproline_barplot_WEIGHT_MG.png (deflated 11%)
  adding: barplots/ornithine_barplot.map (deflated 79%)
  adding: barplots/phenylalanine_barplot.png (deflated 25%)
  adding: barplots/G50_sbarplot.map (deflated 81%)
  adding: barplots/cysteine_barplot_DAY.png (deflated 18%)
  adding: barplots/hypotaurine_barplot_GROUP.png (deflated 18%)
  adding: barplots/dihomo.alpha.linolenate..20.3.n.3.._barplot_DOSE_MG_KG.png (deflated 17%)
  adding: barplots/stearate..18.0._barplot.png (deflated 22%)
  adding: barplots/allantoin_barplot_WEIGHT_MG.png (deflated 11%)
  adding: barplots/beta.sitosterol_barplot_DOSE_MG_KG.png (deflated 18%)
  adding: barplots/dihomo.alpha.linolenate..20.3.n.3.._barplot_DAY.png (deflated 17%)
  adding: barplots/gamma.aminobutyrate..GABA._barplot_WEIGHT_MG.png (deflated 11%)
  adding: barplots/ornithine_barplot_DAY.png (deflated 19%)
  adding: barplots/inositol.1.phosphate..I1P._barplot_DOSE_MG_KG.png (deflated 21%)
  adding: barplots/caprate..10.0._barplot_DOSE_MG_KG.png (deflated 23%)
  adding: barplots/X3.phosphoglycerate_barplot_DAY.png (deflated 20%)
  adding: barplots/myo.inositol_barplot.png (deflated 22%)
  adding: barplots/trans.4.hydroxyproline_barplot_DAY.png (deflated 23%)
  adding: barplots/N.acetylmannosamine_barplot_GROUP.png (deflated 17%)
  adding: barplots/gulono.14.lactone_barplot_DOSE_MG_KG.png (deflated 21%)
  adding: barplots/caprate..10.0._barplot.png (deflated 29%)
  adding: barplots/G55_sbarplot.map (deflated 81%)
  adding: barplots/phosphopantetheine_barplot_GROUP.png (deflated 25%)
  adding: barplots/glycerol.2.phosphate_barplot.map (deflated 79%)
  adding: barplots/cysteine_barplot.map (deflated 79%)
  adding: barplots/G79_4keggColoring.csv (deflated 74%)
  adding: barplots/G63_4keggColoring.csv (deflated 74%)
  adding: barplots/laurate..12.0._barplot.png (deflated 25%)
  adding: barplots/F.047.25._barplot.map (deflated 79%)
  adding: barplots/isoleucine_barplot.png (deflated 23%)
  adding: barplots/glycerol.2.phosphate_barplot_GROUP.png (deflated 16%)
  adding: barplots/fructose_barplot_WEIGHT_MG.png (deflated 10%)
  adding: barplots/cytidine_barplot_GROUP.png (deflated 20%)
  adding: barplots/X2..deoxyinosine_barplot.png (deflated 26%)
  adding: barplots/X3.hydroxybutyrate..BHBA._barplot_DOSE_MG_KG.png (deflated 20%)
  adding: barplots/undecanoate..11.0._barplot_WEIGHT_MG.png (deflated 10%)
  adding: barplots/inosine_barplot.map (deflated 79%)
  adding: barplots/nicotinamide_barplot_WEIGHT_MG.png (deflated 11%)
  adding: barplots/stearidonate_barplot.png (deflated 26%)
  adding: barplots/arginine_barplot.map (deflated 79%)
  adding: barplots/hyodeoxycholate_barplot_DOSE_MG_KG.png (deflated 27%)
  adding: barplots/docosahexaenoate..DHA.22.6.n.3.._barplot.map (deflated 78%)
  adding: barplots/G69_sbarplot.map (deflated 81%)
  adding: barplots/inositol.1.phosphate..I1P._barplot_WEIGHT_MG.png (deflated 10%)
  adding: barplots/carnitine_barplot.png (deflated 21%)
  adding: barplots/phosphate_barplot.png (deflated 30%)
  adding: barplots/beta.alanine_barplot_GROUP.png (deflated 18%)
  adding: barplots/urea_barplot.map (deflated 79%)
  adding: barplots/hypotaurine_barplot_WEIGHT_MG.png (deflated 10%)
  adding: barplots/sphingosine_barplot.map (deflated 79%)
  adding: barplots/maltotriose_barplot.map (deflated 79%)
  adding: barplots/adenosine.5..diphosphate..ADP._barplot_DAY.png (deflated 21%)
  adding: barplots/gamma.glutamylglutamate_barplot.png (deflated 32%)
  adding: barplots/mannose_barplot_DAY.png (deflated 17%)
  adding: barplots/glutathione.oxidized..GSSG._barplot.png (deflated 26%)
  adding: barplots/G92_sbarplot.png (deflated 23%)
  adding: barplots/caproate..6.0._barplot.png (deflated 22%)
  adding: barplots/X1.stearoyl.sn.glycero.3.phosphocholine_barplot.map (deflated 79%)
  adding: barplots/X1.Oleoyl.sn.glycero.3.phosphocholine_barplot_DOSE_MG_KG.png (deflated 23%)
  adding: barplots/X3.phosphoglycerate_barplot.png (deflated 25%)
  adding: barplots/glycylvaline_barplot_DAY.png (deflated 21%)
  adding: barplots/oleate.18.1.n.9.._barplot.png (deflated 18%)
  adding: barplots/G62_sbarplot.png (deflated 26%)
  adding: barplots/glycylproline_barplot_DAY.png (deflated 19%)
  adding: barplots/N.acetylmannosamine_barplot_DAY.png (deflated 17%)
  adding: barplots/X1.Oleoyl.sn.glycero.3.phosphocholine_barplot_WEIGHT_MG.png (deflated 10%)
  adding: PCAGROUP_PC1_PC2.map (deflated 77%)
  adding: data_all_beforeCheck.csv (deflated 51%)
  adding: PCADAY_PC2_PC3.png (deflated 15%)
  adding: PCADOSE_MG_KG_PC1_PC2.png (deflated 19%)
  adding: data_beforeCheck.csv (deflated 51%)
  adding: PCA_PC1_PC3.png (deflated 15%)
  adding: phenotypes_nominal.csv (deflated 78%)
  adding: PCADOSE_MG_KG_propOfVar.png (deflated 11%)
  adding: pca.rotations.csv (deflated 54%)
  adding: PCADOSE_MG_KG_PC2_PC3.map (deflated 77%)
  adding: PCA_propOfVar.png (deflated 15%)
  adding: aux.txt (stored 0%)
  adding: PCAGROUP.pdf (deflated 81%)
  adding: kendall.png (deflated 68%)
  adding: server_log.txt (deflated 90%)
  adding: PCAGROUP_PC1_PC3.png (deflated 16%)
  adding: PCAGROUP_PC1_PC2.png (deflated 20%)
  adding: PCADOSE_MG_KG.pdf (deflated 81%)
  adding: keggMapping.csv (deflated 60%)
  adding: PCADOSE_MG_KG_PC1_PC3.map (deflated 77%)
  adding: PCA_PC2_PC3.png (deflated 15%)
  adding: PCADAY_PC2_PC3.map (deflated 77%)
  adding: phenotypes_beforeCheck.csv (deflated 70%)
FINISHED with /home/metap2/exec/process_metaP_data.R
+ echo 'these are the files that are now here:'
these are the files that are now here:
+ ls -ltra
total 9488
-rw-r--r--    1 www-data www-data   66723 Mar  7 15:00 input.tmp
-rw-r--r--    1 www-data www-data   66714 Mar  7 15:00 input
-rw-r--r--    1 www-data www-data    1366 Mar  7 15:00 phenotypes.txt.tmp
-rw-r--r--    1 www-data www-data    1366 Mar  7 15:00 phenotypes.txt
-rw-r--r--    1 www-data www-data       0 Mar  7 15:00 aux.txt
-rw-r--r--    1 www-data www-data     265 Mar  7 15:00 options
-rwxr-xr-x    1 www-data www-data     613 Mar  7 15:00 metaPjob.cmd
-rw-rw-r--    1 metap2   metap2         1 Mar  7 15:02 out_params.txt
-rw-rw-r--    1 metap2   metap2     65673 Mar  7 15:02 input_4R
-rw-rw-r--    1 metap2   metap2      4322 Mar  7 15:02 keggMapping.csv
-rw-rw-r--    1 metap2   metap2      6643 Mar  7 15:02 metabNamesMapping.csv
-rw-rw-r--    1 metap2   metap2     67535 Mar  7 15:02 data_beforeCheck.csv
-rw-rw-r--    1 metap2   metap2      1312 Mar  7 15:02 phenotypes_beforeCheck.csv
-rw-rw-r--    1 metap2   metap2     68177 Mar  7 15:02 data_all_beforeCheck.csv
-rw-rw-r--    1 metap2   metap2         2 Mar  7 15:02 cv.ok
-rw-rw-r--    1 metap2   metap2      3903 Mar  7 15:02 colsToMark.x.csv
-rw-rw-r--    1 metap2   metap2       336 Mar  7 15:02 rowsToMark.csv
-rw-rw-r--    1 metap2   metap2        74 Mar  7 15:02 colsToMark.csv
-rw-rw-r--    1 metap2   metap2       203 Mar  7 15:02 phenotypes_for_QC.csv
-rw-rw-r--    1 metap2   metap2       927 Mar  7 15:02 phenotypes.csv
-rw-rw-r--    1 metap2   metap2     67059 Mar  7 15:02 data.csv
-rw-rw-r--    1 metap2   metap2     67783 Mar  7 15:02 data_all.csv
-rw-rw-r--    1 metap2   metap2       728 Mar  7 15:02 phenotypes_nominal.csv
-rw-rw-r--    1 metap2   metap2       635 Mar  7 15:02 phenotypes_numeric.csv
-rw-rw-r--    1 metap2   metap2     20563 Mar  7 15:02 summary.csv
-rw-rw-r--    1 metap2   metap2   1772989 Mar  7 15:02 histograms.pdf
drwxrwxrwx 1724 metap2   metap2    188416 Mar  7 15:04 ..
drwxrwxrwx    2 www-data www-data   77824 Mar  7 15:06 barplots
-rw-rw-r--    1 metap2   metap2      7557 Mar  7 15:06 pValuesForAllMetabolites__DAY.csv
-rw-rw-r--    1 metap2   metap2      7733 Mar  7 15:06 pValuesForAllMetabolites__DOSE_MG_KG.csv
-rw-rw-r--    1 metap2   metap2       115 Mar  7 15:06 bonferroni.csv
-rw-rw-r--    1 metap2   metap2      7795 Mar  7 15:06 pValuesForAllMetabolites__GROUP.csv
-rw-rw-r--    1 metap2   metap2   1745998 Mar  7 15:06 hypothesisTests_complete_data.pdf
-rw-rw-r--    1 metap2   metap2      4216 Mar  7 15:06 PCA_PC1_PC2.map
-rw-rw-r--    1 metap2   metap2      2268 Mar  7 15:06 PCA_PC1_PC2.png
-rw-rw-r--    1 metap2   metap2      4215 Mar  7 15:06 PCA_PC1_PC3.map
-rw-rw-r--    1 metap2   metap2      2433 Mar  7 15:06 PCA_PC1_PC3.png
-rw-rw-r--    1 metap2   metap2      4221 Mar  7 15:06 PCA_PC2_PC3.map
-rw-rw-r--    1 metap2   metap2      2362 Mar  7 15:06 PCA_PC2_PC3.png
-rw-rw-r--    1 metap2   metap2     16340 Mar  7 15:06 PCA.pdf
-rw-rw-r--    1 metap2   metap2    124084 Mar  7 15:06 pca.rotations.csv
-rw-rw-r--    1 metap2   metap2      4225 Mar  7 15:06 PCADAY_PC1_PC2.map
-rw-rw-r--    1 metap2   metap2      2321 Mar  7 15:06 PCADAY_PC1_PC2.png
-rw-rw-r--    1 metap2   metap2      4224 Mar  7 15:06 PCADAY_PC1_PC3.map
-rw-rw-r--    1 metap2   metap2      2463 Mar  7 15:06 PCADAY_PC1_PC3.png
-rw-rw-r--    1 metap2   metap2      4230 Mar  7 15:06 PCADAY_PC2_PC3.map
-rw-rw-r--    1 metap2   metap2      2404 Mar  7 15:06 PCADAY_PC2_PC3.png
-rw-rw-r--    1 metap2   metap2     17371 Mar  7 15:06 PCADAY.pdf
-rw-rw-r--    1 metap2   metap2      4246 Mar  7 15:06 PCADOSE_MG_KG_PC1_PC2.map
-rw-rw-r--    1 metap2   metap2      2256 Mar  7 15:06 PCADOSE_MG_KG_PC1_PC2.png
-rw-rw-r--    1 metap2   metap2      4245 Mar  7 15:06 PCADOSE_MG_KG_PC1_PC3.map
-rw-rw-r--    1 metap2   metap2      2421 Mar  7 15:06 PCADOSE_MG_KG_PC1_PC3.png
-rw-rw-r--    1 metap2   metap2      4251 Mar  7 15:06 PCADOSE_MG_KG_PC2_PC3.map
-rw-rw-r--    1 metap2   metap2      2350 Mar  7 15:06 PCADOSE_MG_KG_PC2_PC3.png
-rw-rw-r--    1 metap2   metap2     17518 Mar  7 15:06 PCADOSE_MG_KG.pdf
-rw-rw-r--    1 metap2   metap2      4231 Mar  7 15:06 PCAGROUP_PC1_PC2.map
-rw-rw-r--    1 metap2   metap2      2296 Mar  7 15:06 PCAGROUP_PC1_PC2.png
-rw-rw-r--    1 metap2   metap2      4230 Mar  7 15:06 PCAGROUP_PC1_PC3.map
-rw-rw-r--    1 metap2   metap2      2445 Mar  7 15:06 PCAGROUP_PC1_PC3.png
-rw-rw-r--    1 metap2   metap2      4236 Mar  7 15:06 PCAGROUP_PC2_PC3.map
-rw-rw-r--    1 metap2   metap2      2396 Mar  7 15:06 PCAGROUP_PC2_PC3.png
-rw-rw-r--    1 metap2   metap2     17854 Mar  7 15:06 PCAGROUP.pdf
-rw-rw-r--    1 metap2   metap2     56783 Mar  7 15:06 kendall.pdf
-rw-rw-r--    1 metap2   metap2     25122 Mar  7 15:06 kendall.csv
-rw-rw-r--    1 metap2   metap2    454176 Mar  7 15:06 .R.Rout
-rw-rw-r--    1 metap2   metap2     10668 Mar  7 15:06 kendall.png
-rw-rw-r--    1 metap2   metap2      2667 Mar  7 15:06 PCAGROUP_propOfVar.png
-rw-rw-r--    1 metap2   metap2      2617 Mar  7 15:06 PCADOSE_MG_KG_propOfVar.png
-rw-rw-r--    1 metap2   metap2      2690 Mar  7 15:06 PCADAY_propOfVar.png
-rw-rw-r--    1 metap2   metap2      2339 Mar  7 15:06 PCA_propOfVar.png
-rw-rw-r--    1 metap2   metap2      1602 Mar  7 15:06 processing_log.txt
-rw-rw-r--    1 metap2   metap2   4273689 Mar  7 15:06 download.zip
drwxrwxrwx    3 www-data www-data    4096 Mar  7 15:06 .
-rw-rw-r--    1 metap2   metap2     90221 Mar  7 15:06 server_log.txt
+ set -
Finishing METAP SERVER


-----

OPTION:FORMAT:data format: ' csv_kegg ' OPTION:MISSING:treat LOD/out of quant. data as missing: ' n ' OPTION:OUTLIER:drop outliers : ' n ' OPTION:REFERENCE:drop reference samples : ' n ' OPTION:DEL_METABS:drop metabolites with cv > 0.25 : ' n ' OPTION:RATIOS:calculate metabolite ratios : ' n ' AUX:Barplots of each metabolite class have equal y axis: TRUE Read CSV dataset with 190 columns and 48 rows Data format: csv_kegg EXTRACT: 48 samples and 189 metabolites extracted PHENOTYPES_UPLOAD:Found 48 matched lines with 5 phenotypes specified
PHENOTYPES_UPLOAD:Ignored CLIENT_ID column as each sample has its own phenotype specification while being non-numeric
PHENOTYPES_UPLOAD:Found DAY DOSE_MG_KG GROUP WEIGHT_MG as non-data quality phenotypes
REPLICATES:No replicates BATCHES:No batches Wrote machted dataset to data_all_beforeCheck.csv No replicates in data No extreme outliers identified No extreme outliers identified 48 samples and 189 metabolites in checked data set Wrote machted dataset to data_all.csv Phenotype DAY is nominal Phenotype DOSE_MG_KG is numeric Phenotype DOSE_MG_KG added to nominal phenotypes also Phenotype GROUP is numeric Phenotype GROUP added to nominal phenotypes also Phenotype WEIGHT_MG is numeric Wrote summary.csv file 189 Distribution plots generated Boxplots generated Boxplots generated Boxplots generated 1 phenotypes processed for PCA Wrote kendall correlation table with 189 rows and 6 columns in kendall.csv Correlation plot generated Wrote kendall correlation table with 189 rows and 6 columns in kendall.csv






KEGG Data is provided by the Kanehisa Laboratories for academic use. Any commercial use of KEGG data requires a license agreement from Pathway Solutions Inc.
The Helmholtz Zentrum München imprint applies.

This page is maintained by Gabi Kastenmüller and Werner Römisch-Margl.
Last modification: 28 December 2009

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