root/galaxy-central/test-data/rgtestouts/rgHaploView/Log_rgHaploViewtest1.txt @ 2

リビジョン 2, 3.1 KB (コミッタ: hatakeyama, 14 年 前)

import galaxy-central
Rev行番号 
[2]1*****************************************************
2Haploview 4.2   Java Version: 1.6.0_03
3*****************************************************
4
5
6Arguments:      -n      -pairwiseTagging        -pedfile        /opt/galaxy/test-data/rgtestouts/rgHaploView/rgHaploViewtest1.ped       -info   /opt/galaxy/test-data/rgtestouts/rgHaploView/rgHaploViewtest1.info      -tagrsqcounts   -tagrsqcutoff   0.8     -ldcolorscheme  RSQ     -maxDistance    200000  -compressedpng  -chromosome     22     
7
8
9Max LD comparison distance = 200000kb
10Using data file: /opt/galaxy/test-data/rgtestouts/rgHaploView/rgHaploViewtest1.ped
11Using marker information file: /opt/galaxy/test-data/rgtestouts/rgHaploView/rgHaploViewtest1.info
12Writing output to rgHaploViewtest1.ped.LD.PNG
13Starting tagging.
14Writing output to rgHaploViewtest1.ped.TAGS
15Writing output to rgHaploViewtest1.ped.TESTS
16Writing output to rgHaploViewtest1.ped.CHAPS
17release = 21
18*****************************************************
19Haploview 4.2   Java Version: 1.6.0_03
20*****************************************************
21
22
23Arguments:      -n      -chromosome     22      -panel  YRI     -hapmapDownload -startpos       21784   -endpos 21905   -ldcolorscheme  RSQ     -maxDistance    200000  -compressedpng 
24
25
26Max LD comparison distance = 200000kb
27Downloading chromosome 22, analysis panel YRI, 21784..21905 from HapMap release 21.
28Writing output to Chromosome22YRI.LD.PNG
29This is pdfjoin version 1.20
30Reading site configuration from /etc/pdfnup.conf
31  Temporary LaTeX file for this job is /var/tmp/22578.tex
32  Calling pdflatex...
33  Finished: output is /opt/galaxy/test-data/rgtestouts/rgHaploView/alljoin.pdf
34This is pdfnup version 1.20
35Reading site configuration from /etc/pdfnup.conf
36Processing alljoin.pdf...
37  Temporary LaTeX file for this job is /var/tmp/22621-1.tex
38  Calling pdflatex...
39  Finished: output is /opt/galaxy/test-data/rgtestouts/rgHaploView/allnup.pdf
40PATH=/usr/kerberos/bin:/usr/local/bin:/bin:/usr/bin:/home/rerla/bin
41## rgHaploView.py looking for 10 rs (['rs2283802', 'rs2267000', 'rs16997606', 'rs4820537', 'rs3788347'])## rgHaploView.py: wrote 10 markers, 40 subjects for region
42
43## executing java -jar /opt/galaxy/tool-data/shared/jars/haploview.jar -n -memory 2048 -pairwiseTagging -pedfile /opt/galaxy/test-data/rgtestouts/rgHaploView/rgHaploViewtest1.ped -info /opt/galaxy/test-data/rgtestouts/rgHaploView/rgHaploViewtest1.info -tagrsqcounts -tagrsqcutoff 0.8 -ldcolorscheme RSQ -maxDistance 200000 -compressedpng -chromosome 22 returned 0
44## executing mogrify -resize 800x400! *.PNG returned 0
45## executing convert -resize 800x400! rgHaploViewtest1.ped.LD.PNG rgHaploViewtest1.tmp.png returned 0
46## executing convert -pointsize 25 -fill maroon -draw "text 10,300 'rgHaploViewtest1'" rgHaploViewtest1.tmp.png 1_rgHaploViewtest1.png returned 0
47## executing convert -resize 800x400! Chromosome22YRI.LD.PNG rgHaploViewtest1.tmp.png returned 0
48## executing convert -pointsize 25 -fill maroon -draw "text 10,300 'HapMap YRI'" rgHaploViewtest1.tmp.png 2_HapMap_YRI_22.png returned 0
49### nimages=2
50## executing mogrify -format pdf -resize 800x400! *.png returned 0
51## executing pdfjoin "*.pdf" --fitpaper true --outfile alljoin.pdf returned 0
52## executing pdfnup alljoin.pdf --nup 1x2 --outfile allnup.pdf returned 0
Note: リポジトリブラウザについてのヘルプは TracBrowser を参照してください。