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Lifting over GWAS summary statististic file from build 38 to build 37

I am using the UCSC lift over tool and the associated chain to lift over the results of my GWAS summary statistic file (a tab separated file) from build 38 to build 37. The GWAS summary stat file looks like: Follwing is the UCSC tool with the associated chain I am using: liftover: http://hgdownload.soe.ucsc.edu/admin/exe/linux.x86_64/liftOver chain file: ftp://hgdownload.cse.ucsc.edu/goldenPath/hg38/liftOver/hg38ToHg19.over.chain.gz I want to

issue when saving script output to file

I have an install script that I want to save its output to a file, I have tried ./install.sh 2>&1 | tee /tmp/install.log it writes to the file, but my issue is this: script outputon console without tee script output on console and file with tee Loading layers info is not printed at all, neither on console nor file, any

Unable to push/pull docker image to a certificate authenticated private registry? (Not workin only on WSL, remote error: tls: alert(116))

I think this is a really strange and interesting issue. I have a client cert authenticated docker registry set up, width the help of apache. I have put the necessary certificate files to the appropriate folders according to this article. Docker pull/push gives this error message: Error response from daemon: Get https://***:9443/v2/: remote error: tls: alert(116) I think my certificate

XPath syntax to edit specific node in HTML using xmlstarlet

Supposing I have an HTML document like what’s below: mypage.html How would I edit the element set to MY_ID? I’ve used the following command successfully when it was just the table in a document, but placing it in a larger document broke it: Answer Your td element needs to be closed (</td>) for it to be valid XML. You can

Why is my envsubst command just inserting blank strings?

I’m trying to run the command envsubst < myfile to replace environment variables but instead of being replaced with their values, they are being replaced with blank strings. Here’s my example command (split onto separate lines for clarity): Here are my results: I’m clearly doing something obvious wrong, I just have a silly suspicion it’s one of those things that

how to use IF to test if a value meets a certain mask

I have a variable and I need to test if it contain a formated value like this ……..-….-….-….-………… the variable can contem any value in any format, and I need to test if the value is like 1572C097-4452-4495-8369-C7606F2C867E I tried using sed to retrieve the value from another variable But now, I dont have a clue how can I use

Linker cannot find local shared library

I’m trying a very simple exmaple to create a shared library and link to it. The shared library is as follows: Then the source code file is just as simple: I’m then compiling that into a shared library with: All good, we get an ardgrab.so library so to test it, with the following code in teh same directory as the

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