Problems connecting to ENSEMBL FTP server

[Faitero]

Cannot download ENSEMBL annotation from the cluster. It work on my computer but never from the HPC. Do you have any idea why this is happening?

iCount annotation --release 75 --out_dir iCount_genomes --annotation hs75.gtf.gz homo_sapiens
Executing the following command: iCount annotation --release 75 --out_dir iCount_genomes --annotation hs75.gtf.gz homo_sapiens
Input parameters for function 'annotation' in iCount.genomes.ensembl
    species: homo_sapiens
    release: 75
    out_dir: iCount_genomes
    annotation: hs75.gtf.gz
Input parameters for function 'species' in iCount.genomes.ensembl
    release: 84
[ConnectionError] Problems connecting to ENSEMBL FTP server.
  File "/home/skgtiru/programs/ENV/lib/python3.5/site-packages/iCount-2.0.0.dev0-py3.5.egg/iCount/cli.py", line 438, in main
    result_object = func(**args)

  File "/home/skgtiru/programs/ENV/lib/python3.5/site-packages/iCount-2.0.0.dev0-py3.5.egg/iCount/genomes/ensembl.py", line 141, in annotation
    if species not in iCount.genomes.ensembl.species():

  File "/home/skgtiru/programs/ENV/lib/python3.5/site-packages/iCount-2.0.0.dev0-py3.5.egg/iCount/genomes/ensembl.py", line 105, in species
    ftp = get_ftp_instance()

  File "/home/skgtiru/programs/ENV/lib/python3.5/site-packages/iCount-2.0.0.dev0-py3.5.egg/iCount/genomes/ensembl.py", line 54, in get_ftp_instance
    raise ConnectionError('Problems connecting to ENSEMBL FTP server.')

[JureZmrzlikar]

• Log to HPC machine
• start interactive python session by typing python (or python3)
• import ftplib
• ftp = ftplib.FTP('ftp.ensembl.org')
• ftp.login()

Last or second last command should fail. Please paste the error message here.

[Faitero]

$ python3
Python 3.5.1 (default, Apr 18 2016, 19:33:49) 
[GCC 4.7.2 20121015 (Red Hat 4.7.2-5)] on linux
Type "help", "copyright", "credits" or "license" for more information.
>>> import ftplib
>>> ftp = ftplib.FTP('ftp.ensembl.org')
>>> ftp.login()
'230 Anonymous access granted, restrictions apply'

[JureZmrzlikar]

Strange, this is a succes, not an error... Can you try again with the original command?

[Faitero]

It works on a interactive session... I'll try again with SGE scheduler job. Let you know