1e64cd7af04589dcf62384be522455b1021eaecf hiram Tue May 14 16:19:01 2019 -0700 the Broad dog hub broke down refs #18869 diff --git src/hg/hubApi/tests/makefile src/hg/hubApi/tests/makefile index 94f9295..8a707a5 100644 --- src/hg/hubApi/tests/makefile +++ src/hg/hubApi/tests/makefile @@ -640,29 +640,30 @@ # wiggle data from a track hub bigWig file, with chrom, start, end wig24: setOutput @printf "### $@ 'https://hgwdev-hiram.gi.ucsc.edu/cgi-bin/hubApi/getData/track?track=gc5Base;chrom=chrCp;genome=araTha1;hubUrl=http://genome-test.gi.ucsc.edu/~hiram/hubs/Plants/hub.txt;end=5647;start=1234;jsonOutputArrays=1;maxItemsOutput=5'\n" @./jsonConsumer.pl -endpoint="/getData/track" -hubUrl="http://genome-test.gi.ucsc.edu/~hiram/hubs/Plants/hub.txt" -genome="araTha1" -track="gc5Base" -chrom="chrCp" -start=1234 -end=5647 -jsonOutputArrays -maxItemsOutput=5 2>&1 | egrep -v "${excludeLines}" | sed -e 's#https://.*/getData#/getData#;' | gzip -c > testOutput/$@.gz @zdiff expected/$@.gz testOutput/$@.gz # request a track that is not yet supported: bam notSup01: setOutput @printf "### $@ 'https://hgwdev-hiram.gi.ucsc.edu/cgi-bin/hubApi/getData/track?track=shMethylSubtrack;chrom=chr1;genome=hg19;hubUrl=http://lasallelab.genomecenter.ucdavis.edu/UCSChub/hub.txt;jsonOutputArrays=1;maxItemsOutput=5'\n" @./jsonConsumer.pl -endpoint="/getData/track" -hubUrl="http://lasallelab.genomecenter.ucdavis.edu/UCSChub/hub.txt" -genome="hg19" -track="shMethylSubtrack" -chrom="chr1" -jsonOutputArrays -maxItemsOutput=5 2>&1 | egrep -v "${excludeLines}" | sed -e 's#https://.*/getData#/getData#;' | gzip -c > testOutput/$@.gz @zdiff expected/$@.gz testOutput/$@.gz # request a track that is not yet supported: vcfTabix notSup02: setOutput - @printf "### $@ 'https://hgwdev-hiram.gi.ucsc.edu/cgi-bin/hubApi/getData/track?track=CTVT_SNV_Som;chrom=chr1;genome=canFam3;hubUrl=https://data.broadinstitute.org/vgb/dog/dog/hub.txt;jsonOutputArrays=1;maxItemsOutput=5'\n" - @./jsonConsumer.pl -endpoint="/getData/track" -hubUrl="https://data.broadinstitute.org/vgb/dog/dog/hub.txt" -genome="canFam3" -track="CTVT_SNV_Som" -chrom="chr1" -jsonOutputArrays -maxItemsOutput=5 2>&1 | egrep -v "${excludeLines}" | sed -e 's#https://.*/getData#/getData#;' | gzip -c > testOutput/$@.gz + @printf "### $@ 'https://hgwdev-hiram.gi.ucsc.edu/cgi-bin/hubApi/getData/track?track=variants;chrom=chr1;genome=danRer11;hubUrl=http://research.nhgri.nih.gov/manuscripts/Burgess/zebrafish/downloads/NHGRI-1/hub.txt;jsonOutputArrays=1;maxItemsOutput=5'\n" + @./jsonConsumer.pl -endpoint="/getData/track" -hubUrl="http://research.nhgri.nih.gov/manuscripts/Burgess/zebrafish/downloads/NHGRI-1/hub.txt" -genome="danRer11" -track="variants" -chrom="chr1" -jsonOutputArrays -maxItemsOutput=5 2>&1 | egrep -v "${excludeLines}" | sed -e 's#https://.*/getData#/getData#;' | gzip -c > testOutput/$@.gz @zdiff expected/$@.gz testOutput/$@.gz + # 34 bam - not supported # 2 bigBarChart - not supported # 3 bigInteract - not supported # 18 bigMaf - not supported # 152 composite container - not supported # 93 composite view - not supported # 37 halSnake - not supported # 31 superTrack child - not supported # 5 vcfTabix - not supported