f-c-f commented 3 months ago

../../LDBlockShow/bin/LDBlockShow -InVCF chr3.sv.edited.filter.recode.vcf -OutPut hapl_block -Region 3:1-100000 -OutPng -SeleVar 1

Warning skip non bi-allelic(Singleton/ThreeMulti allelic) site, and total skip allelic sites number is :20

Warning skip low Minor Allele Frequency site, and total skip allelic sites number is :41

Start Region Cal... :3 1 100000; In This Region TotalSNP Number is 34

find blocks... Segmentation fault mv: cannot stat 'hapl_block.plink.blocks.det': No such file or directory gzip: hapl_block.blocks: No such file or directory Warining: SVG module in Perl is missing, trying to loading the built-in [SVG.pm]... Loading SVG module done Start draw... SVG info: SNPNumber :34 , SVG (width,height) = (1955,1445) convert SVG ---> PNG ... ALL done

hewm2008 commented 3 months ago

若是mac 下载对应的plink放在bin里面 755一下

f-c-f commented 3 months ago

不是mac，Ubuntu，原因是我原来安装过plink，我把bin里面的plink删除就好了

hewm2008 commented 3 months ago

好的解决了就行当是plink的版本的影响

McCord000 commented 4 weeks ago

如果plink1.9就会有这样的影响吗？

hewm2008 commented 4 weeks ago

plink 1.9 版本对应你所以的系统

McCord000 commented 4 weeks ago

20240816174407 还是会报错，mv: 无法获取'out.plink.blocks.det' 的文件状态(stat): 没有那个文件或目录

hewm2008 commented 3 weeks ago

whiich plink 一下可能要把你的其它地方的plink替换一下为我bin里面的

BGI-shenzhen / LDBlockShow

plink无法使用 #42

Warning skip non bi-allelic(Singleton/ThreeMulti allelic) site, and total skip allelic sites number is :20

Warning skip low Minor Allele Frequency site, and total skip allelic sites number is :41

Start Region Cal... :3 1 100000; In This Region TotalSNP Number is 34