Question: liftOverPlink Syntax error
0
gravatar for pwuucl
27 days ago by
pwuucl0
pwuucl0 wrote:

Hello,

Has anyone used liftOverPlink before? I downloaded the script as well as the chain file, then tried the command below, but it always came up the error message:

python liftOverPlink.py --map mymap.map --out myoutput --chain hg17ToHg18.over.chain.gz
  File "/home/pingwu01/liftOverPlink.py", line 7
    <!DOCTYPE html>
    ^
SyntaxError: invalid syntax

Very confused.. Just wonder if anyone has any clue please? Thanks!

Kitty

snp software error • 85 views
ADD COMMENTlink modified 26 days ago • written 27 days ago by pwuucl0

Hello pwuucl,

Please use the formatting bar (especially the code option) to present your post better. I've done it for you this time.
code_formatting

Thank you!

ADD REPLYlink written 27 days ago by lieven.sterck8.3k
1
gravatar for Sam
27 days ago by
Sam3.0k
New York
Sam3.0k wrote:

From the look of it, your liftOverPlink.py might be a html file. Could you please make sure you have downloaded the file correctly?

Maybe this link will help https://github.com/sritchie73/liftOverPlink/archive/master.zip

ADD COMMENTlink written 27 days ago by Sam3.0k
0
gravatar for pwuucl
26 days ago by
pwuucl0
pwuucl0 wrote:

Many thanks Sam. I was thinking of this as well but struggling to find the right file, your link was very timely! I am using your PRSice2 as well, might ask about the scoring later ... Thanks again

ADD COMMENTlink written 26 days ago by pwuucl0
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