Problem to install the package BCBio from biopython

Problem to install the package BCBio from biopython - not available?

Hey guys!

I have a exonarate gff result and I'm trying to covert it to gb format, so I can train ausgustus!

The thing is I've found this script https://github.com/robsyme/nextflow-annotate/blob/master/bin/gff2gb but I'm having a dependency with the BCBio from Biopython.

I've been trying to install biopython (and such dependency) in a virtual machine on the cluster where I work, but I find Biopython webpage to be offline!!

Can someone help me to get this file so I can install it?

Thank you so much!

rna-seq genome next-gen alignment

• 2,706 views • link

updated 8.0 years ago by Biostar

• written 10.3 years ago by marcela.uliano •

Your question was also asked on http://seqanswers.com/forums/showthread.php?t=67463

• 0 views • link

written 10.3 years ago by p.j.a.kamei •

1 answer

As recently announced by OBF the website is indeed offline:

The Biopython, BioPerl, BioSQL, etc websites are currently down (but not the main OBF website and blog), may need a server rebuild... sorry!
— OBF News (@obf_news) April 6, 2016

I expect it to be temporarily.

• 0 views • link

written 10.3 years ago by WouterDeCoster

More posts like this

Biopython installation error
written 1.7 years ago by Oliver •

Hello, I'm trying to install biopython (1.84) on a macOS (14.6.1 (23G93)), however I get the following error messages at the beginning of the installation: …
Is the definition of the secondary_structure_fraction function wrong?
written 4.2 years ago by renjing679 •

Personally I think amino acids E, M, A, and L are commonly found in helix and V, I, Y, F, W, L in sheet, but …
Need help on installing poretools
written 5.4 years ago by dreamfeathers08 •

Hi, I'm new to bioinformatics. I'm trying to install poretools. I've followed the steps from here: https://github.com/arq5x/poretools/blob/master/docs/content/installation.rst (basic installation) At the second step on updating …
Minion RNA-seq local basecalled .fast5 dataset
written 6.4 years ago by adeline •

Does anyone have or know where I can find Minion ONT 1D RNA-seq local basecalled .fast5 dataset? I'm working on developing a pipeline for differential …
How to use anvio's gzipped HMM externally with HMMER?
written 6.8 years ago by O.rka

I'm trying to use this HMM that I have with my installation of Anvio using just HMMER: https://github.com/merenlab/anvio/blob/master/anvio/data/hmm/Bacteria_71/genes.hmm.gz I've went through the source code below …
ModuleNotFoundError: No module named 'Bio'
written 6.9 years ago by alissamariewilliams2015 •

Can anyone help me with this? I am at my wit's end. I recently got a new computer (mac), and installed Python via Anaconda. I …
PlasmidFinder installation error
written 7.1 years ago by El Niño •

Hi guys, As I've got to find a way to detect possible plasmids in my whole genome, I've been working to install and use PlasmidFinder …
Biopython Development on Ubuntu
written 8.0 years ago by ldaveyl •

**see comments for better explanation** Hi Everyone, I’m a master student in Bioinformatics and I’m interested in contributing code to Biopython. I'd like to work …
Trouble installing bioservices.
written 9.1 years ago by khaeuk

Hello! I am posting another 'beginner' question.. I am trying to install bioservices because it is one of the dependencies I need for my project …
Parsing genomeCoverageBed (-bga flag) result to see multiple contigs coverage!
written 9.8 years ago by marcela.uliano •

Hey guys! I'm trying to calculate one thing and I'm sure someone else has also done this. So maybe someone have a script ready! I …