Mercurial > repos > greg > ideas_genome_tracks
changeset 56:c54ef43eaee3 draft
Uploaded
author | greg |
---|---|
date | Fri, 15 Dec 2017 16:45:01 -0500 |
parents | 9b7405976dfe |
children | 7a7d5c3c5480 |
files | ideas_genome_tracks.R |
diffstat | 1 files changed, 2 insertions(+), 2 deletions(-) [+] |
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--- a/ideas_genome_tracks.R Fri Dec 15 13:55:43 2017 -0500 +++ b/ideas_genome_tracks.R Fri Dec 15 16:45:01 2017 -0500 @@ -82,7 +82,7 @@ t = c(t, L); np = cbind(chr[t], posst[t0], posed[t], tstate[t]); track_file_name_bed <- get_track_file_name(base_track_file_name, i, "bed"); - track_file_name_bigbed <- get_track_file_name(base_track_file_name, i, "bb"); + track_file_name_bigbed <- get_track_file_name(base_track_file_name, i, "bigbed"); x = cbind(np[, 1:3], state_name[as.integer(np[,4])+1], 1000, ".", np[,2:3]); write.table(as.matrix(x), track_file_name_bed, quote=F, row.names=F, col.names=F); system(paste("bedToBigBed ", track_file_name_bed, chrom_len_file, " ", track_file_name_bigbed)); @@ -129,7 +129,7 @@ } get_big_data_url = function(galaxy_url, encoded_dataset_id, tracks_dir, index, build) { - track_files <- list.files(path=tracks_dir, pattern="\\.bb"); + track_files <- list.files(path=tracks_dir, pattern="\\.bigbed"); s <- paste(galaxy_url, 'datasets/', encoded_dataset_id, '/display/myHub/', build, '/', track_files[index], sep=""); return(s) }