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JobID: 1708022221395341

***  MH aa dmso len with replicates 3  ***

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

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Running METAP SERVER
Wed Aug  2 22:22:02 CEST 2017
ID=1708022221395341
/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/1708022221395341
+ hostname
metap
+ uname -a
Linux metap 4.4.0-65-generic #86-Ubuntu SMP Thu Feb 23 17:49:58 UTC 2017 x86_64 x86_64 x86_64 GNU/Li...
+ echo 'this is the environment'
this is the environment
+ env
RATIOS=n
OUTLIER=n
MISSING=n
DATADIR=/home/metap2/data
SHELL=/bin/sh
JOBID=MH aa dmso len with replicates 3
REFERENCE=n
PATH=/home/metap2/exec:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
PWD=/home/metap2/public_html/users/1708022221395341
PRIVAT=0
LANG=en_US.UTF-8
SHLVL=1
HOME=/home/metap2
ID=1708022221395341
DEL_METABS=n
FORMAT=csv
LOGNAME=metap2
EMAIL=unknown
USERID=unknown
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 40477 Aug  2 22:22 .R.Rout
  adding: kendall.csv (deflated 45%)
  adding: KL_cv.csv (deflated 46%)
  adding: PCA_PC1_PC3.map (deflated 80%)
  adding: PCAcell.line_PC2_PC3.png (deflated 21%)
  adding: summary.csv (deflated 48%)
  adding: colsToMark.x.csv (deflated 37%)
  adding: phenotypes.csv (deflated 74%)
  adding: kendall.pdf (deflated 72%)
  adding: data_all.csv (deflated 56%)
  adding: PCA_PC1_PC2.png (deflated 21%)
  adding: PCAtreatment_PC1_PC2.png (deflated 20%)
  adding: PCAtreatment_propOfVar.png (deflated 16%)
  adding: cv_average.csv (deflated 51%)
  adding: processing_log.txt (deflated 58%)
  adding: options (deflated 38%)
  adding: PCAtreatment_PC1_PC2.map (deflated 80%)
  adding: colsToMark.csv (deflated 18%)
  adding: PCAtreatment_PC1_PC3.png (deflated 21%)
  adding: phenotypes_numeric.csv (deflated 75%)
  adding: PCAcell.line.pdf (deflated 81%)
  adding: cv.pdf (deflated 92%)
  adding: MD_cv.csv (deflated 45%)
  adding: hypothesisTests_separated_for_treatment.pdf (deflated 85%)
  adding: PCA_PC1_PC2.map (deflated 80%)
  adding: JL_cv.csv (deflated 45%)
  adding: PCA:cell.line.pdf (deflated 81%)
  adding: PCA_PC2_PC3.map (deflated 80%)
  adding: PCAtreatment_PC2_PC3.png (deflated 20%)
  adding: hypothesisTests_complete_data.pdf (deflated 86%)
  adding: pValuesForAllMetabolites__treatment.csv (deflated 43%)
  adding: pValuesForAllMetabolites_cell.line_treatment.csv (deflated 67%)
  adding: PCAcell.line_PC1_PC3.map (deflated 80%)
  adding: PCAtreatment.pdf (deflated 82%)
  adding: bonferroni.csv (deflated 32%)
  adding: rowsToMark.csv (deflated 77%)
  adding: RL_cv.csv (deflated 46%)
  adding: metabNamesMapping.csv (deflated 49%)
  adding: PCA.pdf (deflated 81%)
  adding: out_params.txt (stored 0%)
  adding: input (deflated 55%)
  adding: KD_cv.csv (deflated 46%)
  adding: data.csv (deflated 55%)
  adding: phenotypes.txt (deflated 69%)
  adding: DU_cv.csv (deflated 46%)
  adding: ML_cv.csv (deflated 46%)
  adding: phenotypes_for_QC.csv (deflated 70%)
  adding: histograms.pdf (deflated 89%)
  adding: PCAcell.line_PC2_PC3.map (deflated 80%)
  adding: AD_cv.csv (deflated 45%)
  adding: upperOutliers.csv (deflated 43%)
  adding: pValuesForAllMetabolites__cell.line.csv (deflated 44%)
  adding: barplots/1022149992_sbarplot.map (deflated 74%)
  adding: barplots/1022150590_sbarplot.map (deflated 74%)
  adding: barplots/Thr_barplot_cell.line.png (deflated 17%)
  adding: barplots/Cit_barplot_treatment.png (deflated 18%)
  adding: barplots/1022150687_sbarplot.map (deflated 74%)
  adding: barplots/1022150464_sbarplot.map (deflated 74%)
  adding: barplots/Pro_barplot_cell.line.png (deflated 16%)
  adding: barplots/Ala_barplot.map (deflated 80%)
  adding: barplots/Val_barplot_cell.line.png (deflated 18%)
  adding: barplots/Trp_barplot.map (deflated 80%)
  adding: barplots/1022150551_sbarplot.png (deflated 50%)
  adding: barplots/1022150668_sbarplot.map (deflated 74%)
  adding: barplots/1022149988_sbarplot.png (deflated 48%)
  adding: barplots/Val_barplot.map (deflated 80%)
  adding: barplots/Pro_barplot_treatment.png (deflated 18%)
  adding: barplots/Ile_barplot_treatment.png (deflated 23%)
  adding: barplots/Lys_barplot.map (deflated 80%)
  adding: barplots/Asn_barplot.map (deflated 80%)
  adding: barplots/1022150547_sbarplot.png (deflated 52%)
  adding: barplots/Gln_barplot.png (deflated 29%)
  adding: barplots/1022150620_sbarplot.png (deflated 51%)
  adding: barplots/1022150736_sbarplot.png (deflated 53%)
  adding: barplots/1022150071_sbarplot.png (deflated 58%)
  adding: barplots/1022150649_sbarplot.map (deflated 74%)
  adding: barplots/Ala_barplot.png (deflated 24%)
  adding: barplots/Ala_barplot_treatment.png (deflated 19%)
  adding: barplots/Trp_barplot_cell.line.png (deflated 16%)
  adding: barplots/Arg_barplot_cell.line.png (deflated 18%)
  adding: barplots/Phe_barplot_treatment.png (deflated 24%)
  adding: barplots/Ser_barplot_cell.line.png (deflated 21%)
  adding: barplots/Gly_barplot_cell.line.png (deflated 19%)
  adding: barplots/Tyr_barplot_treatment.png (deflated 20%)
  adding: barplots/1022150634_sbarplot.png (deflated 51%)
  adding: barplots/Asp_barplot_treatment.png (deflated 21%)
  adding: barplots/Gly_barplot.map (deflated 80%)
  adding: barplots/1022150000_sbarplot.png (deflated 49%)
  adding: barplots/1022150717_sbarplot.png (deflated 50%)
  adding: barplots/1022149992_sbarplot.png (deflated 49%)
  adding: barplots/Met_barplot.png (deflated 23%)
  adding: barplots/Thr_barplot.map (deflated 81%)
  adding: barplots/1022150532_sbarplot.png (deflated 49%)
  adding: barplots/Val_barplot_treatment.png (deflated 24%)
  adding: barplots/Thr_barplot_treatment.png (deflated 22%)
  adding: barplots/1022150498_sbarplot.png (deflated 50%)
  adding: barplots/Met_barplot_cell.line.png (deflated 15%)
  adding: barplots/1022150048_sbarplot.map (deflated 74%)
  adding: barplots/Gln_barplot_cell.line.png (deflated 17%)
  adding: barplots/1022150566_sbarplot.map (deflated 74%)
  adding: barplots/1022150483_sbarplot.map (deflated 74%)
  adding: barplots/1022150620_sbarplot.map (deflated 74%)
  adding: barplots/Asn_barplot_treatment.png (deflated 23%)
  adding: barplots/Asn_barplot.png (deflated 26%)
  adding: barplots/1022150479_sbarplot.map (deflated 74%)
  adding: barplots/Ile_barplot.png (deflated 27%)
  adding: barplots/1022150634_sbarplot.map (deflated 74%)
  adding: barplots/1022150615_sbarplot.png (deflated 53%)
  adding: barplots/Asn_barplot_cell.line.png (deflated 17%)
  adding: barplots/1022150551_sbarplot.map (deflated 74%)
  adding: barplots/1022150691_sbarplot.map (deflated 74%)
  adding: barplots/Lys_barplot_cell.line.png (deflated 20%)
  adding: barplots/His_barplot.map (deflated 80%)
  adding: barplots/1022150450_sbarplot.png (deflated 52%)
  adding: barplots/Cit_barplot_cell.line.png (deflated 15%)
  adding: barplots/1022150067_sbarplot.map (deflated 74%)
  adding: barplots/1022150532_sbarplot.map (deflated 74%)
  adding: barplots/Lys_barplot.png (deflated 29%)
  adding: barplots/Orn_barplot.png (deflated 30%)
  adding: barplots/1022150445_sbarplot.png (deflated 51%)
  adding: barplots/Tyr_barplot.map (deflated 80%)
  adding: barplots/Orn_barplot.map (deflated 80%)
  adding: barplots/Glu_barplot.png (deflated 24%)
  adding: barplots/1022150721_sbarplot.map (deflated 74%)
  adding: barplots/1022150509_sbarplot.map (deflated 74%)
  adding: barplots/Glu_barplot.map (deflated 80%)
  adding: barplots/1022150498_sbarplot.map (deflated 74%)
  adding: barplots/1022149973_sbarplot.map (deflated 74%)
  adding: barplots/1022150571_sbarplot.png (deflated 52%)
  adding: barplots/Tyr_barplot.png (deflated 26%)
  adding: barplots/His_barplot_cell.line.png (deflated 18%)
  adding: barplots/Ala_barplot_cell.line.png (deflated 16%)
  adding: barplots/1022150033_sbarplot.png (deflated 58%)
  adding: barplots/Trp_barplot_treatment.png (deflated 20%)
  adding: barplots/Pro_barplot.png (deflated 24%)
  adding: barplots/1022150513_sbarplot.map (deflated 74%)
  adding: barplots/Leu_barplot.map (deflated 81%)
  adding: barplots/1022150702_sbarplot.png (deflated 50%)
  adding: barplots/Trp_barplot.png (deflated 26%)
  adding: barplots/Orn_barplot_cell.line.png (deflated 18%)
  adding: barplots/1022150479_sbarplot.png (deflated 50%)
  adding: barplots/1022150445_sbarplot.map (deflated 74%)
  adding: barplots/1022150736_sbarplot.map (deflated 74%)
  adding: barplots/1022150668_sbarplot.png (deflated 52%)
  adding: barplots/1022149973_sbarplot.png (deflated 51%)
  adding: barplots/1022150672_sbarplot.map (deflated 74%)
  adding: barplots/Lys_barplot_treatment.png (deflated 23%)
  adding: barplots/Orn_barplot_treatment.png (deflated 23%)
  adding: barplots/Gln_barplot.map (deflated 81%)
  adding: barplots/Leu_barplot_treatment.png (deflated 22%)
  adding: barplots/Arg_barplot_treatment.png (deflated 22%)
  adding: barplots/1022150431_sbarplot.png (deflated 50%)
  adding: barplots/Gly_barplot.png (deflated 28%)
  adding: barplots/1022150052_sbarplot.png (deflated 58%)
  adding: barplots/Phe_barplot_cell.line.png (deflated 18%)
  adding: barplots/1022150717_sbarplot.map (deflated 74%)
  adding: barplots/Cit_barplot.png (deflated 22%)
  adding: barplots/1022150585_sbarplot.png (deflated 50%)
  adding: barplots/1022150585_sbarplot.map (deflated 74%)
  adding: barplots/1022150071_sbarplot.map (deflated 75%)
  adding: barplots/1022150431_sbarplot.map (deflated 74%)
  adding: barplots/Phe_barplot.map (deflated 81%)
  adding: barplots/1022150687_sbarplot.png (deflated 50%)
  adding: barplots/Leu_barplot.png (deflated 28%)
  adding: barplots/1022150086_sbarplot.map (deflated 75%)
  adding: barplots/Val_barplot.png (deflated 32%)
  adding: barplots/1022150014_sbarplot.map (deflated 74%)
  adding: barplots/Asp_barplot_cell.line.png (deflated 18%)
  adding: barplots/1022150483_sbarplot.png (deflated 54%)
  adding: barplots/1022150590_sbarplot.png (deflated 51%)
  adding: barplots/Met_barplot_treatment.png (deflated 21%)
  adding: barplots/1022150649_sbarplot.png (deflated 51%)
  adding: barplots/1022150067_sbarplot.png (deflated 57%)
  adding: barplots/Gln_barplot_treatment.png (deflated 22%)
  adding: barplots/1022150528_sbarplot.png (deflated 52%)
  adding: barplots/Leu_barplot_cell.line.png (deflated 16%)
  adding: barplots/1022150653_sbarplot.map (deflated 74%)
  adding: barplots/1022150653_sbarplot.png (deflated 52%)
  adding: barplots/Ile_barplot_cell.line.png (deflated 18%)
  adding: barplots/Cit_barplot.map (deflated 80%)
  adding: barplots/Arg_barplot.map (deflated 80%)
  adding: barplots/Tyr_barplot_cell.line.png (deflated 16%)
  adding: barplots/1022150464_sbarplot.png (deflated 50%)
  adding: barplots/1022150000_sbarplot.map (deflated 74%)
  adding: barplots/1022150426_sbarplot.png (deflated 51%)
  adding: barplots/1022150426_sbarplot.map (deflated 74%)
  adding: barplots/Arg_barplot.png (deflated 27%)
  adding: barplots/1022150513_sbarplot.png (deflated 49%)
  adding: barplots/1022150528_sbarplot.map (deflated 74%)
  adding: barplots/Glu_barplot_treatment.png (deflated 21%)
  adding: barplots/1022150691_sbarplot.png (deflated 51%)
  adding: barplots/1022150086_sbarplot.png (deflated 58%)
  adding: barplots/1022150566_sbarplot.png (deflated 50%)
  adding: barplots/1022150014_sbarplot.png (deflated 48%)
  adding: barplots/1022150615_sbarplot.map (deflated 74%)
  adding: barplots/Ile_barplot.map (deflated 80%)
  adding: barplots/Phe_barplot.png (deflated 26%)
  adding: barplots/His_barplot.png (deflated 26%)
  adding: barplots/Gly_barplot_treatment.png (deflated 23%)
  adding: barplots/1022150052_sbarplot.map (deflated 75%)
  adding: barplots/1022149988_sbarplot.map (deflated 74%)
  adding: barplots/1022150702_sbarplot.map (deflated 74%)
  adding: barplots/Pro_barplot.map (deflated 81%)
  adding: barplots/1022150721_sbarplot.png (deflated 53%)
  adding: barplots/1022150033_sbarplot.map (deflated 74%)
  adding: barplots/1022150509_sbarplot.png (deflated 51%)
  adding: barplots/Ser_barplot_treatment.png (deflated 26%)
  adding: barplots/Ser_barplot.png (deflated 32%)
  adding: barplots/1022150048_sbarplot.png (deflated 54%)
  adding: barplots/Met_barplot.map (deflated 81%)
  adding: barplots/His_barplot_treatment.png (deflated 21%)
  adding: barplots/Asp_barplot.map (deflated 81%)
  adding: barplots/Thr_barplot.png (deflated 24%)
  adding: barplots/1022150571_sbarplot.map (deflated 74%)
  adding: barplots/1022150547_sbarplot.map (deflated 74%)
  adding: barplots/Glu_barplot_cell.line.png (deflated 17%)
  adding: barplots/1022150672_sbarplot.png (deflated 53%)
  adding: barplots/1022150450_sbarplot.map (deflated 73%)
  adding: barplots/Ser_barplot.map (deflated 81%)
  adding: barplots/Asp_barplot.png (deflated 28%)
  adding: data_all_beforeCheck.csv (deflated 56%)
  adding: PCA:treatment.pdf (deflated 81%)
  adding: lowerOutliers.csv (deflated 49%)
  adding: data_beforeCheck.csv (deflated 55%)
  adding: JD_cv.csv (deflated 46%)
  adding: PCA_PC1_PC3.png (deflated 22%)
  adding: phenotypes_nominal.csv (deflated 74%)
  adding: pca.rotations.csv (deflated 51%)
  adding: hypothesisTests_separated_for_cell.line.pdf (deflated 89%)
  adding: PCA_propOfVar.png (deflated 19%)
  adding: PCAtreatment_PC2_PC3.map (deflated 80%)
  adding: PCAcell.line_PC1_PC2.map (deflated 80%)
  adding: aux.txt (stored 0%)
  adding: AL_cv.csv (deflated 45%)
  adding: PCAtreatment_PC1_PC3.map (deflated 80%)
  adding: kendall.png (deflated 77%)
  adding: server_log.txt (deflated 84%)
  adding: metabolitesForDropping.csv (stored 0%)
  adding: PCAcell.line_PC1_PC2.png (deflated 20%)
  adding: UL_cv.csv (deflated 46%)
  adding: pca.rotations_cell.line.csv (deflated 51%)
  adding: pValuesForAllMetabolites_treatment_cell.line.csv (deflated 51%)
  adding: PCAcell.line_PC1_PC3.png (deflated 21%)
  adding: PCA_PC2_PC3.png (deflated 20%)
  adding: PCAcell.line_propOfVar.png (deflated 13%)
  adding: pca.rotations_cell.line_treatment.csv (deflated 51%)
  adding: phenotypes_beforeCheck.csv (deflated 74%)
  adding: RD_cv.csv (deflated 46%)
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 2152
-rw-r--r--    1 www-data www-data   5348 Aug  2 22:21 input.tmp
-rw-r--r--    1 www-data www-data   5348 Aug  2 22:21 input
-rw-r--r--    1 www-data www-data    936 Aug  2 22:21 phenotypes.txt.tmp
-rw-r--r--    1 www-data www-data    936 Aug  2 22:21 phenotypes.txt
-rw-r--r--    1 www-data www-data      0 Aug  2 22:21 aux.txt
-rw-r--r--    1 www-data www-data    257 Aug  2 22:21 options
-rwxr-xr-x    1 www-data www-data    603 Aug  2 22:21 metaPjob.cmd
drwxrwxrwx 2314 metap2   metap2   258048 Aug  2 22:22 ..
-rw-rw-r--    1 metap2   metap2        1 Aug  2 22:22 out_params.txt
-rw-rw-r--    1 metap2   metap2     5347 Aug  2 22:22 input_4R
-rw-rw-r--    1 metap2   metap2      200 Aug  2 22:22 metabNamesMapping.csv
-rw-rw-r--    1 metap2   metap2     5391 Aug  2 22:22 data_beforeCheck.csv
-rw-rw-r--    1 metap2   metap2     1053 Aug  2 22:22 phenotypes_beforeCheck.csv
-rw-rw-r--    1 metap2   metap2     5922 Aug  2 22:22 data_all_beforeCheck.csv
-rw-rw-r--    1 metap2   metap2      646 Aug  2 22:22 AD_cv.csv
-rw-rw-r--    1 metap2   metap2      638 Aug  2 22:22 AL_cv.csv
-rw-rw-r--    1 metap2   metap2      644 Aug  2 22:22 DU_cv.csv
-rw-rw-r--    1 metap2   metap2      644 Aug  2 22:22 JD_cv.csv
-rw-rw-r--    1 metap2   metap2      644 Aug  2 22:22 JL_cv.csv
-rw-rw-r--    1 metap2   metap2      643 Aug  2 22:22 KD_cv.csv
-rw-rw-r--    1 metap2   metap2      647 Aug  2 22:22 KL_cv.csv
-rw-rw-r--    1 metap2   metap2      637 Aug  2 22:22 MD_cv.csv
-rw-rw-r--    1 metap2   metap2      638 Aug  2 22:22 ML_cv.csv
-rw-rw-r--    1 metap2   metap2      641 Aug  2 22:22 RD_cv.csv
-rw-rw-r--    1 metap2   metap2      640 Aug  2 22:22 RL_cv.csv
-rw-rw-r--    1 metap2   metap2      637 Aug  2 22:22 UL_cv.csv
-rw-rw-r--    1 metap2   metap2    70908 Aug  2 22:22 cv.pdf
-rw-rw-r--    1 metap2   metap2        2 Aug  2 22:22 cv.ok
-rw-rw-r--    1 metap2   metap2      378 Aug  2 22:22 cv_average.csv
-rw-rw-r--    1 metap2   metap2       12 Aug  2 22:22 metabolitesForDropping.csv
-rw-rw-r--    1 metap2   metap2      852 Aug  2 22:22 lowerOutliers.csv
-rw-rw-r--    1 metap2   metap2      673 Aug  2 22:22 upperOutliers.csv
-rw-rw-r--    1 metap2   metap2      588 Aug  2 22:22 rowsToMark.csv
-rw-rw-r--    1 metap2   metap2      187 Aug  2 22:22 colsToMark.x.csv
-rw-rw-r--    1 metap2   metap2       57 Aug  2 22:22 colsToMark.csv
-rw-rw-r--    1 metap2   metap2      613 Aug  2 22:22 phenotypes_for_QC.csv
-rw-rw-r--    1 metap2   metap2      913 Aug  2 22:22 phenotypes.csv
-rw-rw-r--    1 metap2   metap2     5347 Aug  2 22:22 data.csv
-rw-rw-r--    1 metap2   metap2     5787 Aug  2 22:22 data_all.csv
-rw-rw-r--    1 metap2   metap2      663 Aug  2 22:22 phenotypes_numeric.csv
-rw-rw-r--    1 metap2   metap2      913 Aug  2 22:22 phenotypes_nominal.csv
-rw-rw-r--    1 metap2   metap2     1828 Aug  2 22:22 summary.csv
-rw-rw-r--    1 metap2   metap2   192710 Aug  2 22:22 histograms.pdf
drwxrwxrwx    2 www-data www-data  12288 Aug  2 22:22 barplots
-rw-rw-r--    1 metap2   metap2      635 Aug  2 22:22 pValuesForAllMetabolites__cell.line.csv
-rw-rw-r--    1 metap2   metap2      579 Aug  2 22:22 pValuesForAllMetabolites__treatment.csv
-rw-rw-r--    1 metap2   metap2   149885 Aug  2 22:22 hypothesisTests_complete_data.pdf
-rw-rw-r--    1 metap2   metap2      971 Aug  2 22:22 pValuesForAllMetabolites_cell.line_treatment.c...
-rw-rw-r--    1 metap2   metap2   299450 Aug  2 22:22 hypothesisTests_separated_for_cell.line.pdf
-rw-rw-r--    1 metap2   metap2      114 Aug  2 22:22 bonferroni.csv
-rw-rw-r--    1 metap2   metap2     1037 Aug  2 22:22 pValuesForAllMetabolites_treatment_cell.line.c...
-rw-rw-r--    1 metap2   metap2   174760 Aug  2 22:22 hypothesisTests_separated_for_treatment.pdf
-rw-rw-r--    1 metap2   metap2     4593 Aug  2 22:22 PCA_PC1_PC2.map
-rw-rw-r--    1 metap2   metap2     2159 Aug  2 22:22 PCA_PC1_PC2.png
-rw-rw-r--    1 metap2   metap2     4583 Aug  2 22:22 PCA_PC1_PC3.map
-rw-rw-r--    1 metap2   metap2     2143 Aug  2 22:22 PCA_PC1_PC3.png
-rw-rw-r--    1 metap2   metap2     4579 Aug  2 22:22 PCA_PC2_PC3.map
-rw-rw-r--    1 metap2   metap2     2125 Aug  2 22:22 PCA_PC2_PC3.png
-rw-rw-r--    1 metap2   metap2     8586 Aug  2 22:22 pca.rotations.csv
-rw-rw-r--    1 metap2   metap2    14831 Aug  2 22:22 PCA.pdf
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-rw-rw-r--    1 metap2   metap2     1620 Aug  2 22:22 processing_log.txt
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-rw-rw-r--    1 metap2   metap2   484468 Aug  2 22:22 download.zip
drwxrwxrwx    3 www-data www-data   4096 Aug  2 22:22 .
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Finishing METAP SERVER


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OPTION:FORMAT:data format: ' csv ' 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 Fileformat CSV - deleted lines - win-lin Read CSV dataset with 22 columns and 42 rows Data format: csv EXTRACT: 42 samples and 21 metabolites extracted PHENOTYPES_UPLOAD:Found 36 matched lines with 3 phenotypes specified
REPLICATES:Found REPLICATES as a phenotype for data quality checks PHENOTYPES_UPLOAD:Found cell.line treatment as non-data quality phenotypes
BATCHES:No batches Wrote machted dataset to data_all_beforeCheck.csv DEL_METAB:Found 3 metabolites with cv above 0.25 Wrote extreme outliers into lowerOutliers.csv Wrote extreme outliers into upperOutliers.csv 42 samples and 21 metabolites in checked data set Wrote machted dataset to data_all.csv Phenotype cell.line is nominal Phenotype treatment is nominal Phenotype treatment added to numeric phenotypes also Wrote summary.csv file 21 Distribution plots generated Boxplots generated Boxplots generated Boxplots and hypothesis tests depending on cell.line Boxplots generated Boxplots and hypothesis tests depending on treatment Boxplots generated 1 phenotypes processed for PCA Wrote kendall correlation table with 21 rows and 2 columns in kendall.csv Correlation plot generated Wrote kendall correlation table with 21 rows and 2 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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