diff --git a/scripts/illumina/laydi-annot-illumina b/scripts/illumina/laydi-annot-illumina index 100d7e5..0c817d4 100755 --- a/scripts/illumina/laydi-annot-illumina +++ b/scripts/illumina/laydi-annot-illumina @@ -4,7 +4,8 @@ import getopt import os, os.path import sys -OUTPUT_COLS = ["Probe_Id", "RefSeq_ID", "Unigene_ID", "Entrez_Gene_ID", "Accession", "Symbol", "Chromosome", "Definition"] +#OUTPUT_COLS = ["Array_Address_Id", "Entrez_Gene_ID", "Accession", "Chromosome", "Definition", "Ontology_Component", "Ontology_Process", "Ontology_Function", "ILMN_Gene"] +OUTPUT_COLS = ["Array_Address_Id", "Entrez_Gene_ID", "Accession", "ILMN_Gene", "Definition", ] def print_help(): print "laydi-annot-illumina" @@ -46,8 +47,8 @@ def convert_annotations(fn_in, fn_out): export_colnums = [colnames.index(x) for x in OUTPUT_COLS] # Print output column headers - export_colnames = ["probe-id"] + colnames[1:] - print >> fd_out, "\t".join(export_colnames) + export_colnames = ["probe-id"] + OUTPUT_COLS[1:] + print >> fd_out, "\t".join(OUTPUT_COLS) line = fd_in.readline() while not line == "" and not line.startswith("["):