Question

我对来自肿瘤的14个BAM文件7和来自其种系的7个文件进行了分析。在

中

/mnt/d/AKU/FTP/BAM/

我运行了以下命令来测试该工具：

./ximmer -v -nosim -c /mnt/d/AKU/FTP/BAM/config.groovy -o results

这是我的config.groovy文件：

bam_files="/mnt/d/AKU/FTP/BAM/*.bam"
target_regions="/mnt/d/AKU/FTP/BAM/TruSeq_exome_targeted_regions.hg19.bed"
concurrency=20
callers {
    cn.MOPs {}
    exomedepth {}
        Conifer {}
}

运行im后，出现以下错误：

Configured verbose logging
Ximmer  [1]     INFO    |6:51:57 Configured verbose logging
Caught: groovy.lang.MissingMethodException: No signature of method: groovy.util.ConfigObject.MOPs() is applicable for argument types: (script1541573517941211209064$_run_closure1$_closure2) values: [script1541573517941211209064$_run_closure1$_closure2@4b34fff9]
Possible solutions: sort(), is(java.lang.Object), plus(java.util.Collection), plus(java.util.Map), wait(), size()
groovy.lang.MissingMethodException: No signature of method: groovy.util.ConfigObject.MOPs() is applicable for argument types: (script1541573517941211209064$_run_closure1$_closure2) values: [script1541573517941211209064$_run_closure1$_closure2@4b34fff9]
Possible solutions: sort(), is(java.lang.Object), plus(java.util.Collection), plus(java.util.Map), wait(), size()
        at script1541573517941211209064$_run_closure1.doCall(script1541573517941211209064.groovy:5)
        at script1541573517941211209064$_run_closure1.doCall(script1541573517941211209064.groovy)
        at script1541573517941211209064.run(script1541573517941211209064.groovy:4)
        at Ximmer.main(Ximmer.groovy:1266)

在安装XIMMER时，我无法安装xhmm，只有其他所有安装都成功了，并且我也无法解决xhmm错误，即：

在来自sources / lib / MatrixDecomp.cpp：3：0的文件中： ./sources/include/VectorOnDisk.hpp：实例化为'HMM_PP :: VectorOnDisk ::〜VectorOnDisk（）[with dataType = 双]'： sources / lib / MatrixDecomp.cpp：75：1：从此处开始 ./sources/include/VectorOnDisk.hpp:91:37：错误：throw将始终调用终止（）[-Werror = terminate] 抛出新的Exception（str.str（））; ^ ./sources/include/VectorOnDisk.hpp:91:37：注意：在C ++ 11析构函数中默认为noexcept cc1plus：所有警告均被视为错误 config_rules.Makefile：16：目标'build / lib / MatrixDecomp.o'的配方失败 make [2]： * [build / lib / MatrixDecomp.o]错误1 make [2]：离开目录'/ home / sark / ximmer / eval / pipeline / tools / xhmm / statgen-xhmm-cc14e528d909 / sources / hmm ++' Makefile：126：目标'sources / hmm ++ /'的配方失败 make [1]：* [sources / hmm ++ /]错误2 make [1]：离开目录'/ home / sark / ximmer / eval / pipeline / tools / xhmm / statgen-xhmm-cc14e528d909' Makefile：121：目标“全部”的配方失败 make：*** [全部]错误2

可以帮忙吗？

CNV调用工具安装和运行错误：Ximmer

0 个答案: