canu version

[aistBMRG]

Hi,

I assembled a genome using Canu v1.8 and wanted apply circlator v1.5.5.

Now, as a dependency, circlator can install Canu v1.4 -- can you clarify whether the versions should match?

Also, I found that when using Canu v1.8, seems that circlator fails to find the version due to a regrex issue, as has been pointed out and fix I thought ...

Can you clarify which is the better solution, install Canu 1.4 and use that although my assembly was with Canu 1.8, or fix the regrex issue.

Thanks.

Dieter

[xpli2020]

Ssame issue here using canu 2.1.1, can not find canu version. There seems a thread indicating the authors had solved this issue in 2017. So I edited the code in the external_progs.py as below for matching canu version:

'canu':('-version', re.compile(r'canu ([\d+\.\d+[\.\d]*)')),

It passed the test run when running circlator test test_out

[tnn111]

To solve this issue, simply install canu 2.1.1 using their installation instructions; i.e., do not use conda for it.

The one I ran into comes after that :-)

On Feb 28, 2021, at 07:08, xpli2020 [email protected] wrote:

Ssame issue here using canu 2.1.1, can not find canu version. There seems a thread indicating the authors had solved this issue in 2017.

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