url not found

[bgold04]

MacMini:bin bgold$ ls -l
total 48
-rwxr-xr-x 1 bgold staff 2413 Jan 12 01:19 download_fasta_database
-rwxr-xr-x 1 bgold staff 1910 Jan 12 01:19 download_mlst_databases
-rwxr-xr-x 1 bgold staff 4584 Jan 12 01:19 get_emm_sequence_type
-rwxr-xr-x 1 bgold staff 6542 Jan 12 01:19 get_sequence_type
MacMini:bin bgold$ chmod 777 download_mlst_databases
MacMini:bin bgold$ ./download_mlst_databases
Could not connect to https://pubmlst.org/data/dbases.xml

NB: pasting URL into browser DOES connect and show:
This XML file does not appear to have any style information associated with it. The document tree is shown below.


Achromobacter spp.


https://pubmlst.org/achromobacter
2018-04-11

[andrewjpage]

If your behind a proxy you may have to set the HTTPS_PROXY environment variable for it to work on the command line. To be honest @tseemann has better software to address the same problem
https://github.com/tseemann/mlst

I also have a review paper comparing different MLST methods if that helps:
http://mgen.microbiologyresearch.org/content/journal/mgen/10.1099/mgen.0.000124

[fabgenomics]

Hi,
I have the same issue : Could not connect to https://pubmlst.org/data/dbases.xml
My HTTPS_PROXY environment variable is well defined
Do you have any solution ?
Best,
Fabien