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Re: [Vcftools-help] on svn update
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From: Mao J. <jia...@gm...> - 2010-12-31 14:24:42
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Dear Mr. Adam, Thanks for your kind help. I have posted a thread in VCFtools list, named "VCF file can not be read and merged after it was compressed,Why?". I think that is not a difficult problem. But, I am a newbie. I need helps and directions. Note: tabix has been in my path. But, I can not merge the VCF files in the EXAMPLES folder. Jian-Feng 2010/12/31 Adam Auton <ada...@gm...>: > If the svn checkout worked, then you are at the latest version. > A > > On 31 December 2010 14:08, Mao Jianfeng <jia...@gm...> wrote: >> >> Dear Adam, >> >> Following your advice, I firstly ran "svn checkout >> https://vcftools.svn.sourceforge.net/svnroot/vcftools vcftools", and >> then "svn update". But, I still got "Skipped '.' ". >> >> Could you please give me any direction? >> >> I expect your helps. >> >> Jian-Feng >> >> >> >> abt6-mao-mbp:tabix-0.2.3 jianfengmao$ svn checkout >> https://vcftools.svn.sourceforge.net/svnroot/vcftools vcftools >> A vcftools/file_release >> A vcftools/file_release/vcftools_0.1.1_source.tar.gz >> A vcftools/file_release/VCFtools_0.1.3.1.tar.gz >> A vcftools/file_release/vcftools_0.1.2_source.tar.gz >> A vcftools/file_release/vcftools_0.1_source.tar.gz >> A vcftools/file_release/VCFtools_0.1.3.2.tar.gz >> A vcftools/file_release/VCFtools_0.1.3.tar.gz >> A vcftools/file_release/vcftools_0.1.1_source_old.tar.gz >> A vcftools/cpp >> A vcftools/cpp/vcf_entry.cpp >> A vcftools/cpp/vcftools.cpp >> A vcftools/cpp/output_log.cpp >> A vcftools/cpp/parameters.cpp >> A vcftools/cpp/vcf_entry.h >> A vcftools/cpp/vcftools.h >> A vcftools/cpp/vcf_file_diff.cpp >> A vcftools/cpp/vcf_file_filters.cpp >> A vcftools/cpp/output_log.h >> A vcftools/cpp/parameters.h >> A vcftools/cpp/vcf_entry_setters.cpp >> A vcftools/cpp/vcf_file.cpp >> A vcftools/cpp/vcf_file.h >> A vcftools/cpp/Makefile >> A vcftools/cpp/vcf_entry_getters.cpp >> A vcftools/cpp/vcf_file_output.cpp >> A vcftools/perl >> A vcftools/perl/vcf-subset >> A vcftools/perl/FaSlice.pm >> A vcftools/perl/query-vcf >> A vcftools/perl/test.t >> A vcftools/perl/vcf-concat >> A vcftools/perl/vcf-annotate >> A vcftools/perl/ChangeLog >> A vcftools/perl/Vcf.pm >> A vcftools/perl/vcf-convert >> A vcftools/perl/vcf-isec >> A vcftools/perl/vcf-validator >> A vcftools/perl/vcf-to-tab >> A vcftools/perl/compare-vcf >> A vcftools/perl/vcf-sort >> A vcftools/perl/fill-an-ac >> A vcftools/perl/fill-aa >> A vcftools/perl/vcf-shuffle-cols >> A vcftools/perl/fill-rsIDs >> A vcftools/perl/VcfStats.pm >> A vcftools/perl/vcf-stats >> A vcftools/perl/merge-vcf >> A vcftools/perl/Makefile >> A vcftools/website >> A vcftools/website/VCF-poster.pdf >> A vcftools/website/specs.html >> A vcftools/website/src >> A vcftools/website/src/index.inc >> A vcftools/website/src/perl_module.inc >> A vcftools/website/src/docs.inc >> A vcftools/website/src/options.inc >> A vcftools/website/src/specs.inc >> A vcftools/website/src/license.inc >> A vcftools/website/src/index.php >> A vcftools/website/favicon.png >> A vcftools/website/default.css >> A vcftools/website/img >> A vcftools/website/img/bgcontainer.gif >> A vcftools/website/img/quote.gif >> A vcftools/website/img/bgcode.gif >> A vcftools/website/img/li.gif >> A vcftools/website/img/search.gif >> A vcftools/website/img/bg.gif >> A vcftools/website/img/header.gif >> A vcftools/website/img/bgul.gif >> A vcftools/website/Makefile >> A vcftools/website/README >> A vcftools/website/favicon.ico >> A vcftools/.project >> A vcftools/.cproject >> A vcftools/README.txt >> A vcftools/Makefile >> A vcftools/.settings >> A vcftools/.settings/org.eclipse.ltk.core.refactoring.prefs >> A vcftools/examples >> A vcftools/examples/annotate.out >> A vcftools/examples/subset.vcf >> A vcftools/examples/shuffle-test.vcf >> A vcftools/examples/annotate.txt >> A vcftools/examples/cmp-test-a.vcf >> A vcftools/examples/subset.indels.out >> A vcftools/examples/query-test.out >> A vcftools/examples/cmp-test-a-3.3.vcf >> A vcftools/examples/cmp-test-b.vcf >> A vcftools/examples/cmp-test-b-3.3.vcf >> A vcftools/examples/subset.SNPs.out >> A vcftools/examples/merge-test.vcf.out >> A vcftools/examples/isec-n2-test.vcf.out >> A vcftools/examples/annotate2.out >> A vcftools/examples/concat-a.vcf >> A vcftools/examples/invalid-4.0.vcf >> A vcftools/examples/cmp-test.out >> A vcftools/examples/concat-b.vcf >> A vcftools/examples/annotate-test.vcf >> A vcftools/examples/concat-c.vcf >> A vcftools/examples/merge-test-a.vcf >> A vcftools/examples/merge-test-b.vcf >> A vcftools/examples/valid-4.0.vcf.stats >> A vcftools/examples/merge-test-c.vcf >> A vcftools/examples/valid-4.0.vcf >> A vcftools/examples/concat.out >> A vcftools/examples/valid-3.3.vcf >> U vcftools >> Checked out revision 399. >> abt6-mao-mbp:tabix-0.2.3 jianfengmao$ svn update >> Skipped '.' >> >> >> >> >> >> 2010/12/31 Adam Auton <ada...@gm...>: >> > Did you run the following command before using "svn update"? >> > svn checkout https://vcftools.svn.sourceforge.net/svnroot/vcftools >> > vcftools >> > Kind regards, >> > Adam >> > >> > On 31 December 2010 13:28, Mao Jianfeng <jia...@gm...> wrote: >> >> >> >> Dear VCFtools helpers, >> >> >> >> I am new to Unix and genomics. >> >> >> >> When I intent to update VCFtools, I got "Skipped ''."". I want to know >> >> what it is meaning. >> >> >> >> Thank you in Advance. >> >> >> >> Best. >> >> >> >> abt6-mao-mbp:tabix-0.2.3 jianfengmao$ svn update >> >> Skipped '.' >> >> >> >> >> >> -- >> >> Jian-Feng, Mao >> >> >> >> the Institute of Botany, >> >> Chinese Academy of Botany, >> >> >> >> >> >> >> >> ------------------------------------------------------------------------------ >> >> Learn how Oracle Real Application Clusters (RAC) One Node allows >> >> customers >> >> to consolidate database storage, standardize their database >> >> environment, >> >> and, >> >> should the need arise, upgrade to a full multi-node Oracle RAC database >> >> without downtime or disruption >> >> http://p.sf.net/sfu/oracle-sfdevnl >> >> _______________________________________________ >> >> Vcftools-help mailing list >> >> Vcf...@li... >> >> https://lists.sourceforge.net/lists/listinfo/vcftools-help >> > >> > >> > > > > > -- Jian-Feng, Mao the Institute of Botany, Chinese Academy of Botany, |
