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  • fznajar
    replied
    They mentioned to download "cygwin" for windows users. I am trying to find what other emulators I can use.
    Thank you for your time Genomax

    Leave a comment:


  • GenoMax
    replied
    You likely have a broken install then. Is entrezdirect supported on cygwin? If you have Windows 10 then you should use WSL instead.

    Leave a comment:


  • fznajar
    replied
    I get nothing back. It just keeps running until I interrupt it.

    Leave a comment:


  • GenoMax
    replied
    Do you get something back with just first part? An API key is only needed if you are going to run multiple entrezdirect commands over a period of time.

    Code:
    esearch -db pubmed -query "Roe B"
    Second part has a typo. Option should be "docsum`.

    Leave a comment:


  • fznajar
    replied
    I did not realize edirect needs a key at command line. As an example, I am using this command:
    $ esearch -db pubmed -query "Roe B" | efetch -format docum

    On different note, While setting up edirect on cygwin, the setup.sh complained about "too many arguments on line 85" before declaring "installation was successful".
    I am not sure this is linked to my problem.

    Thanks

    Leave a comment:


  • GenoMax
    replied
    Break your search into smaller chunks. Make sure you are signed-up for and are using NCBI_API_KEY.

    Leave a comment:


  • fznajar
    started a topic esearch stuck

    esearch stuck

    Hi,
    I am using esearch (part of the edirect tools) and it seems that it gets stuck without feedback. I am using version 12.0
    Any suggestions?
    Thank you all

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