From 539737ade76bf057fab0db53cc5692f63e24fc73 Mon Sep 17 00:00:00 2001 From: Diane Trout Date: Wed, 16 Feb 2011 11:06:34 -0800 Subject: [PATCH] Add in patterns for Encode Elements submission --- extra/ucsc_encode_submission/ucsc_gather.py | 14 ++++++++++++++ 1 file changed, 14 insertions(+) diff --git a/extra/ucsc_encode_submission/ucsc_gather.py b/extra/ucsc_encode_submission/ucsc_gather.py index 7650a94..07bea2c 100755 --- a/extra/ucsc_encode_submission/ucsc_gather.py +++ b/extra/ucsc_encode_submission/ucsc_gather.py @@ -663,9 +663,19 @@ class NameToViewMap(object): ('*.condor', None), ('*.daf', None), ('*.ddf', None), + + ('*ufflinks?0.9.3.genes.gtf', 'GeneDeNovo'), + ('*ufflinks?0.9.3.transcripts.gtf', 'TranscriptDeNovo'), + ('*GENCODE-v3c.exonFPKM.gtf', 'ExonsGencV3c'), + ('*GENCODE-v3c.genes.gtf', 'GeneGencV3c'), + ('*GENCODE-v3c.transcripts.gtf', 'TranscriptGencV3c'), + ('*GENCODE-v3c.TSS.gtf', 'TSS'), + ('*.junctions.bed6+3', 'Junctions'), + ('*.?ufflinks-0.9.0?genes.expr', 'GeneDeNovo'), ('*.?ufflinks-0.9.0?transcripts.expr', 'TranscriptDeNovo'), ('*.?ufflinks-0.9.0?transcripts.gtf', 'GeneModel'), + ('*.GENCODE-v3c?genes.expr', 'GeneGCV3c'), ('*.GENCODE-v3c?transcript*.expr', 'TranscriptGCV3c'), ('*.GENCODE-v3c?transcript*.gtf', 'TranscriptGencV3c'), @@ -686,6 +696,7 @@ class NameToViewMap(object): ('*.srf', None), ('*.wig', None), ('*.zip', None), + ('transfer_log', None), ] self.views = { @@ -701,6 +712,9 @@ class NameToViewMap(object): "GeneModel": {"MapAlgorithm": ma}, "GeneDeNovo": {"MapAlgorithm": ma}, "TranscriptDeNovo": {"MapAlgorithm": ma}, + "ExonsGencV3c": {"MapAlgorithm": ma}, + "GeneGencV3c": {"MapAlgorithm": ma}, + "TSS": {"MapAlgorithm": ma}, "GeneGCV3c": {"MapAlgorithm": ma}, "TranscriptGCV3c": {"MapAlgorithm": ma}, "TranscriptGencV3c": {"MapAlgorithm": ma}, -- 2.30.2