IndexError: child index out of range

[AbatwahelQuitol]

If I use the next line:
stringMLST.py --getMLST -P Listeria --species Listeria monocytogenes

I get the following error:

Preparing: Listeria
Traceback (most recent call last):
File "/mnt/disk1/bin/miniconda3/bin/stringMLST.py", line 1562, in
profileURL, loci = get_links(dbRoot, filePrefix, species)
File "/mnt/disk1/bin/miniconda3/bin/stringMLST.py", line 268, in get_links
profileURL = child[1].text
IndexError: child index out of range

[ar0ch]

Pubmlst appears to have changed their XML schema, so just pushed a small point update to stringMLST. Also, do note that you should use quotes around your species to make sure you're getting the scheme you think you are; stringMLST.py --getMLST -P Listeria --species "Listeria monocytogenes"

$ ./stringMLST.py -v
 stringMLST v0.6.3 (updated : September 02, 2020)

$ ./stringMLST.py --getMLST -P Listeria --species "Listeria monocytogenes"
Preparing: Listeria monocytogenes
        INFO: normalizing name to: Listeria_monocytogenes
        Database ready for Listeria monocytogenes
        Listeria/Listeria_monocytogenes

[AbatwahelQuitol]

How can I update the version? in my computer! regards

…

________________________________ From: Aroon Chande <notifications@github.com> Sent: Wednesday, September 2, 2020 5:06 PM To: jordanlab/stringMLST <stringMLST@noreply.github.com> Cc: AbatwahelQuitol <christhian091089@outlook.com>; Author <author@noreply.github.com> Subject: Re: [jordanlab/stringMLST] IndexError: child index out of range (#55) Pubmlst appears to have changed their XML schema, so just pushed a small point update to stringMLST. Also, do note that you should use quotes around your species to make sure you're getting the scheme you think you are; stringMLST.py --getMLST -P Listeria --species "Listeria monocytogenes" $ ./stringMLST.py -v stringMLST v0.6.3 (updated : September 02, 2020) $ ./stringMLST.py --getMLST -P Listeria --species "Listeria monocytogenes" Preparing: Listeria monocytogenes INFO: normalizing name to: Listeria_monocytogenes Database ready for Listeria monocytogenes Listeria/Listeria_monocytogenes — You are receiving this because you authored the thread. Reply to this email directly, view it on GitHub<https://eur02.safelinks.protection.outlook.com/?url=https%3A%2F%2Fgithub.com%2Fjordanlab%2FstringMLST%2Fissues%2F55%23issuecomment-686053756&data=02%7C01%7C%7C0e585953732245b5d54b08d84f8c7179%7C84df9e7fe9f640afb435aaaaaaaaaaaa%7C1%7C0%7C637346811895844367&sdata=DbDudzY6QyaH9I9lAEfHClFCYUS4ZmlQTSa0qJzziRM%3D&reserved=0>, or unsubscribe<https://eur02.safelinks.protection.outlook.com/?url=https%3A%2F%2Fgithub.com%2Fnotifications%2Funsubscribe-auth%2FANDSEDMCZQH6XZ2Z7TFGSKTSD26WJANCNFSM4QT2PAWA&data=02%7C01%7C%7C0e585953732245b5d54b08d84f8c7179%7C84df9e7fe9f640afb435aaaaaaaaaaaa%7C1%7C0%7C637346811895854360&sdata=3Wb7LPNgJHuT6bSppIVpESKAC4mHqXDpaS5wRiyBNuY%3D&reserved=0>.

[ar0ch]

Either by pip or cloning the repo and installing from there. I still need to submit an updated conda package and that'll take some time to process on their side.

[ar0ch]

The new conda package should be available shortly