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Reported by keren@eng.ucsd.edu, Jan 23 2014
Any time the output files need to be determined at run time (such as with @split and @subdivide), when a job starts, the files _currently_ present that matc…
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```
A trivial pipeline:
{{{
import os
from ruffus import *
@files("foo.1", "foo.2")
def mkfile1(a, b):
with open(a) as src:
with open(b, "wb") as dst:
data = src.read()
…
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```
When running the Ruffus on the same pipeline on two different systems, I am
having issues generating the pipeline plots on the more up to date system.
Old system (works):
dot - graphviz versio…
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Hi Sergey,
When I try other test shell scripts. I get the same error.
[nalanda@comp-0-12 Test]$ ./test_phylosift.sh
Warning: BLASR is not found, some functionality will not be available
Warning: Me…
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```
Verbosity levels for pipeline_printout and pipeline_run do not seem to be
synchronised. It is not clear what exactly increasing verbosity does at each
level. What is more, different things seem …
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```
Documentation is for 2.3b1 but when I go to download link on pypi.python.org or
code.google.com, only 2.2 shows. Is Ruffus defunct?
```
Original issue reported on code.google.com by `erxnme...…
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I installed from the tarball under ubuntu server 14.04.3.
As far as I noticed, all dependencies are up to date. It seems to fail to recognize a given pdf files as a valid input. This is an AutoCAD p…
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We're making an effort to switch our bioinformatic computing over to Python 3 which offers us some great benefits.
Have you looked at making ruffus Py3 compatible? (The first issue I block on is abso…
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```
I believe the example code in the tutorial was included as images:
http://www.ruffus.org.uk/tutorials/simple_tutorial/step1_follows.html
Would it be possible to include the example code as text, …
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In Python 3, process.communicate() returns bytes, not strings. Calling
stream.write(result_str) in ruffus.graph.graph_printout() causes an exception.
The solution is to open the output file with…