FALCON-integrate
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installation error using master branch
Hello I'm trying to install FALCON but i have several error messages. First I followed this tutorial https://pb-falcon.readthedocs.io/en/latest/quick_start.html and it just didnt work. when I run:
bash -ex install_unzip.sh /path/to/your/install/dir
I got this error message:
Ruta de submódulo 'pypeFLOW': check out realizado a '4c37284f4e239f6ccbe6bb009d20bec604cf9ee3'
- cd /datos/vberrios/falcon/src/FALCON-integrate/FALCON-examples
- ../git-sym/git-sym update run/greg200k-sv2 mkdir -p /datos/vberrios/falcon/src/FALCON-integrate/.git/modules/FALCON-examples/git-sym-local/links os.symlink('../.git/modules/FALCON-examples/git-sym-local/links', '/datos/vberrios/falcon/src/FALCON-integrate/FALCON-examples/.git-sym') -> in dir 'run/greg200k-sv2' <- back to dir '/datos/vberrios/falcon/src/FALCON-integrate/FALCON-examples' symlink: 'run/greg200k-sv2/data/greg200k-sv2' 'run/greg200k-sv2/data/greg200k-sv2' -> '../../../.git-sym/greg200k-sv2.2' does not exist -> in dir '/datos/vberrios/falcon/src/FALCON-integrate/.git/modules/FALCON-examples/git-sym-local/links' -> in dir '/home/vberrios/.git-sym-cache' make -j -f /datos/vberrios/falcon/src/FALCON-integrate/FALCON-examples/git-sym.makefile 'greg200k-sv2.2' make: `greg200k-sv2.2' está actualizado. <- back to dir '/datos/vberrios/falcon/src/FALCON-integrate/.git/modules/FALCON-examples/git-sym-local/links' os.symlink('/home/vberrios/.git-sym-cache/greg200k-sv2.2', 'greg200k-sv2.2') <- back to dir '/datos/vberrios/falcon/src/FALCON-integrate/FALCON-examples'
- cd run/greg200k-sv2
- fc_run fc_run.cfg
Traceback (most recent call last):
File "/datos/vberrios/falcon/fc_env_211230/bin/fc_run", line 6, in
from pkg_resources import load_entry_point File "/usr/lib/python2.7/site-packages/pkg_resources.py", line 3007, in working_set.require(requires) File "/usr/lib/python2.7/site-packages/pkg_resources.py", line 728, in require needed = self.resolve(parse_requirements(requirements)) File "/usr/lib/python2.7/site-packages/pkg_resources.py", line 601, in resolve requirements = list(requirements)[::-1] # set up the stack File "/usr/lib/python2.7/site-packages/pkg_resources.py", line 2839, in parse_requirements line, p, specs = scan_list(VERSION,LINE_END,line,p,(1,2),"version spec") File "/usr/lib/python2.7/site-packages/pkg_resources.py", line 2817, in scan_list "Expected ',' or end-of-list in",line,"at",line[p:] ValueError: ("Expected ',' or end-of-list in", 'falcon-kit==1.0+git.6bb3daa96931aece9bd3742bccc77ad257b7bb65', 'at', '+git.6bb3daa96931aece9bd3742bccc77ad257b7bb65')
What can I do ? if this is not the best way to install falcon I was taking a look here: https://github.com/PacificBiosciences/FALCON-integrate/wiki/Installation but I got several error messages when installing master an develp branches.