1 new commit in galaxy-central: https://bitbucket.org/galaxy/galaxy-central/changeset/5f63ee75a786/ changeset: 5f63ee75a786 user: dan date: 2011-11-09 15:41:12 summary: Remove "-targetNotSorted" argument from GATK indel realigner: vanished without warning or notice. affected #: 1 file diff -r a77cd7bbe375eb7884cfa5ff38d078033f89c1ab -r 5f63ee75a7862d1747a39c878849f9c04bd5a1d5 tools/gatk/indel_realigner.xml --- a/tools/gatk/indel_realigner.xml +++ b/tools/gatk/indel_realigner.xml @@ -1,4 +1,4 @@ -<tool id="gatk_indel_realigner" name="Indel Realigner" version="0.0.3"> +<tool id="gatk_indel_realigner" name="Indel Realigner" version="0.0.4"><description>- perform local realignment</description><requirements><requirement type="package" version="1.2">gatk</requirement> @@ -90,7 +90,6 @@ ##start analysis specific options -d "-targetIntervals" "${target_intervals}" "${target_intervals.ext}" "gatk_target_intervals" -p ' - -targetNotSorted ##always resort input intervals --disable_bam_indexing ' #if $analysis_param_type.analysis_param_type_selector == "advanced": Repository URL: https://bitbucket.org/galaxy/galaxy-central/ -- This is a commit notification from bitbucket.org. You are receiving this because you have the service enabled, addressing the recipient of this email.