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Metal - the commnad you issued could not be processed

Hello. When running METAL software I get the following message:

"ERROR: The command you issued could not be processed...".

On the guide METAL "quick start" I found: For convenience, many commands can be shortened. For example, instead of writing MARKERLABEL SNP, you could write MARKER SNP. If you make a mistake and METAL doesn't understand your command, it will usually say:

"ERROR: The command you issued could not be processed...".

My infoconfig file is:

MARKERLABEL SNP
ALLELELABEL EFFECT_ALLELE NON_EFFECT_ALLELE
FREQ FREQ_EFFECT
EFFECTLABEL BETA
PVALUELABEL PVALUE
STDERR SE
WEIGHTLABEL N
PROCESS file.txt

Why do I still get this message? Does it affect my results? Please let me know.

meta-alanysis metal gwas
• 4,556 views • link
updated by ShirleyDai • ShirleyDai • written by alessandrotestori7 alessandrotestori7

METAL: fast and efficient meta-analysis of genomewide association scans (2010) Cristen J. Willer, Yun Li and Gonçalo R. Abecasis

• 0 views • link
written by alessandrotestori7 alessandrotestori7

1 answer

I guess you would like to run ./metal first. Then here's my script, and it worked.

MARKER   name
ALLELE   A1      A2
EFFECT   beta_SNP_add
STDERR   sebeta_SNP_add
PVAL     p.val
WEIGHTLABEL  n
FREQLABEL Freq1
MINMAXFREQ ON
AVERAGEFREQ ON

PROCESS file1.txt
PROCESS file2.txt
• 0 views • link
written by ShirleyDai • ShirleyDai

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