Hi there, I downloaded locuszoom in it's entirty from their github page. I have everything in order but when I attempt to run the following I get an error:
locuszoom_test/bin/locuszoom --metal chr7.snx13.marker.locuszoom.metal --ld chr7.imputed.concat.sorted.nomono.80.recode.maf01.pheno.vcf.2.ld.locuszoom.input --refsnp rs1533245 --prefix chr7.snx13.rs1533245
/share/hennlab/progs/locuszoom_test/bin/../src/m2zfast.py:82: SyntaxWarning: invalid escape sequence '\d'
RE_SNP_1000G = re.compile("chr(\d+|[a-zA-z]+):(\d+)$");
/share/hennlab/progs/locuszoom_test/bin/../src/m2zfast.py:83: SyntaxWarning: invalid escape sequence '\d'
RE_SNP_RS = re.compile("rs(\d+)");
/share/hennlab/progs/locuszoom_test/bin/../src/m2zfast.py:82: SyntaxWarning: invalid escape sequence '\d'
RE_SNP_1000G = re.compile("chr(\d+|[a-zA-z]+):(\d+)$");
/share/hennlab/progs/locuszoom_test/bin/../src/m2zfast.py:83: SyntaxWarning: invalid escape sequence '\d'
RE_SNP_RS = re.compile("rs(\d+)");
Traceback (most recent call last):
File "/share/hennlab/progs/locuszoom_test/bin/locuszoom", line 26, in <module>
from m2zfast import main
File "/share/hennlab/progs/locuszoom_test/bin/../src/m2zfast.py", line 109
exec "self.%s = v" % str(k);
^^^^^^^^^^^^^^^^^^^^^^^^^^^
SyntaxError: Missing parentheses in call to 'exec'. Did you mean exec(...)?
Has anyone gotten this before? Not sure how to fix it
This error seems to be related to python version. As noted on the locuszoom page you need to use python v.2.7+ (v.3.x can't be used). Your default python is v.3.x. If you have python 2.7+. available on your machine then be sure to use that.
You're 100% correct, I loaded 2.7 but the default was overriding it. Creating a conda env with only 2.7 worked. Thank you!
Log in to answer this question.
