GATK2 is unable to find reference genomes
Dear All, I installed gatk2 from tool_shed, and see below for my gatk2_picard_index.loc Anyone can tell me what the mistake is? Old gatk can use this file to find all reference genomes, but gatk2 cannot. Fenglou
Hi Fenglou, which file have you edited? Under tool-data or tool-data/toolshed.g2.bx.psu.edu/repos/iuc/gatk2/340633249b3d/gatk2_picard_index.loc ? Cheers, Bjoern Am 26.02.2014 22:37, schrieb Fenglou Mao:
Dear All,
I installed gatk2 from tool_shed, and see below for my gatk2_picard_index.loc
Anyone can tell me what the mistake is? Old gatk can use this file to find all reference genomes, but gatk2 cannot.
Fenglou
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Thanks, edited the wrong file. Fenglou On 26 February 2014 16:40, Björn Grüning <bjoern.gruening@gmail.com> wrote:
Hi Fenglou,
which file have you edited? Under tool-data or tool-data/ toolshed.g2.bx.psu.edu/repos/iuc/gatk2/340633249b3d/gatk2_picard_index.loc?
Cheers, Bjoern
Am 26.02.2014 22:37, schrieb Fenglou Mao:
Dear All,
I installed gatk2 from tool_shed, and see below for my gatk2_picard_index.loc
Anyone can tell me what the mistake is? Old gatk can use this file to find all reference genomes, but gatk2 cannot.
Fenglou
___________________________________________________________ Please keep all replies on the list by using "reply all" in your mail client. To manage your subscriptions to this and other Galaxy lists, please use the interface at: http://lists.bx.psu.edu/
To search Galaxy mailing lists use the unified search at: http://galaxyproject.org/search/mailinglists/
No problem, your welcome. If you have any other feedback, please get in touch! Bjoern Am 26.02.2014 23:59, schrieb Fenglou Mao:
Thanks, edited the wrong file.
Fenglou
On 26 February 2014 16:40, Björn Grüning <bjoern.gruening@gmail.com> wrote:
Hi Fenglou,
which file have you edited? Under tool-data or tool-data/ toolshed.g2.bx.psu.edu/repos/iuc/gatk2/340633249b3d/gatk2_picard_index.loc?
Cheers, Bjoern
Am 26.02.2014 22:37, schrieb Fenglou Mao:
Dear All,
I installed gatk2 from tool_shed, and see below for my gatk2_picard_index.loc
Anyone can tell me what the mistake is? Old gatk can use this file to find all reference genomes, but gatk2 cannot.
Fenglou
___________________________________________________________ Please keep all replies on the list by using "reply all" in your mail client. To manage your subscriptions to this and other Galaxy lists, please use the interface at: http://lists.bx.psu.edu/
To search Galaxy mailing lists use the unified search at: http://galaxyproject.org/search/mailinglists/
participants (2)
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Björn Grüning
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Fenglou Mao