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Exiting, exception thrown: std::bad_alloc #32

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Navin-techi opened this issue Jul 19, 2021 · 1 comment
Open

Exiting, exception thrown: std::bad_alloc #32

Navin-techi opened this issue Jul 19, 2021 · 1 comment

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@Navin-techi
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Hi All,
Found std::bad_alloc error while running the raremetalworker with ped & vcf files. Help need in fixing this.

**```

The command run :-

$ raremetalworker --ped in.ped --dat in_new.dat --vcf in_new1.vcf.gz --traitName pheno1 --inverseNormal --makeResiduals --prefix test2_nxy


**_#

The output screens

Please go to "http://genome.sph.umich.edu/wiki/RAREMETAL_DOWNLOAD_%26_BUILD#Where_to_Download" for the latest version.

Options:
Input Files : --ped [in.ped], --dat [in_new.dat],
--vcf [in_new1.vcf.gz], --dosage, --binary
Output Files : --prefix [test2_nxy], --LDwindow [1000000], --zip,
--thin, --labelHits
VC Options : --vcX, --separateX
Trait Options : --makeResiduals [ON], --inverseNormal [ON],
--traitName [pheno1]
Model Options : --recessive, --dominant
Kinship Source : --kinPedigree, --kinGeno, --kinFile [], --kinxFile [],
--kinSave
Kinship Options : --kinMaf [0.05], --kinMiss [0.05]
Chromosome X : --xLabel [X], --xStart [2699520], --xEnd [154931044],
--maleLabel [1], --femaleLabel [2]
others : --cpu [1], --kinOnly,
--geneMap [../data/refFlat_hg19.txt], --mergedVCFID
PhoneHome : --noPhoneHome, --phoneHomeThinning [100]

Analysis started at: Mon Jul 19 13:02:31 2021

Loading PED/DAT files ...
Loading DAT files ...done.
Loading PED files ...done.

Loading data used 1.2 seconds.

To account for relatedness in the sample,
NOTHING WILL BE DONE

Sanity checking input files ...
completed.

Friendly reminder: if your file has a lot of individuals not genotyped, the following process might take very long ... done.
Analyzing trait "pheno1" ...
Matching individuals in phenotype and genotypes ...
Found xxxxx phenotyped AND genotyped individuals from xxxxx families.
done.

Start fitting linear model ... Exiting, exception thrown: std::bad_alloc_**

@Navin-techi
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hi Developer,

Hope i could get some help on the above mentioned qurey.

@welchr @abought @jonathonl @traxexx

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