[BUG] Execution Halted

[mdibiase1]

HI there,

Describe the bug My command is generating an 'Execution Halted' error

Error Log PRSice 2.3.3 (2020-08-05) https://github.com/choishingwan/PRSice (C) 2016-2020 Shing Wan (Sam) Choi and Paul F. O'Reilly GNU General Public License v3 If you use PRSice in any published work, please cite: Choi SW, O'Reilly PF. PRSice-2: Polygenic Risk Score Software for Biobank-Scale Data. GigaScience 8, no. 7 (July 1, 2019) 2021-08-04 20:11:02 PRSice_linux \ --a1 A1 \ --a2 A2 \ --bar-levels 0.001,0.05,0.1,0.2,0.3,0.4,0.5,1 \ --base CLOZUK_PGC2noclo.METAL.assoc.dosage.fix \ --binary-target T \ --bp BP \ --chr CHR \ --clump-kb 250kb \ --clump-p 1.000000 \ --clump-r2 0.100000 \ --extract PRS_CLOZUK_PGC2noclo.METAL.assoc.dosage.fix.valid \ --fastscore \ --model add \ --no-regress \ --nonfounders \ --num-auto 22 \ --out test \ --print-snp \ --pvalue P \ --score sum \ --seed 189902053 \ --snp SNP \ --stat BETA \ --target chr# \ --thread 1

Initializing Genotype file: chr# (bed)

Start processing CLOZUK_PGC2noclo.METAL.assoc.dosage ==================================================

SNP extraction/exclusion list contains 5 columns, will assume first column contains the SNP ID

Base file: CLOZUK_PGC2noclo.METAL.assoc.dosage.fix Header of file is: SNP CHR BP A1 A2 OR SE P DIRECTION

Reading 100.00% 8064799 variant(s) observed in base file, with: 1163532 variant(s) excluded based on user input 6901267 total variant(s) included from base file

Loading Genotype info from target ==================================================

486572 people (222640 male(s), 263776 female(s)) observed 486572 founder(s) included

Error: Execution halted

[choishingwan]

That's likely related to memory. i.e. It crashes because there isn't enough memory.

[stale[bot]]

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