Comments (4)
Going back through my install history and found that the version of fitter is bioconda/noarch::fitter-1.2.3-pyh145b6a8_0
. In case it matters, my conda environment is using python 3.7.13.
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@galvanized I'm surprised, I have done a quick test:
conda create --name fitter fitter
and it works for me. I believe this is related to the python version. In my case, By default v3.10 of python is installed and fitter/easydev are installed automatically. I see that you installed version of fitter is 1.2.3 and I believe the issue is fixed in 1.4.0 that is the latest on conda. I have now also tests with python 3.7.13 without any issues. So I believe you should try with the latest version. I'm surprised though that your conda did not install the latest version. What is your platform ? mac/windows/linux ? Here, I see that the 'noarch' is used so it should not matter.
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Platform is Ubuntu 20.04.4 LTS.
It seems channel-related. I have not added any extra channels to my .condarc and am including them using the -c flag.
Doing conda create --name fitter -c bioconda fitter
gives the same problem as earlier:
installing fitter bioconda/noarch::fitter-1.2.3-pyh145b6a8_0
instead of the latest, and no easydev
.
The correct command seems to be conda create --name fitter -c bioconda -c conda-forge fitter
, it installs both packages.
easydev conda-forge/noarch::easydev-0.12.0-pyh6c4a22f_0
fitter bioconda/noarch::fitter-1.4.0-pyh5e36f6f_0
After installing this way, everything runs as expected.
The trick is that fitter needs both the bioconda and conda-forge channels. As someone that doesn't usually use bioconda, I didn't know that it should be used in conjunction with conda-forge. It's clear enough on their website but I didn't think to check there.
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@galvanized thanks for reporting this detailled solution. I did not know about that specific needs from using the two channels. In the next release, easydev will be replaced by a more standard package but the issue may be similar. thanks again
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Related Issues (20)
- Bug: disabling progress when running `fit()` fails HOT 1
- Covariance matrix for parameters
- Documentation for distribution options in fitter
- Bug: get_best() returns worst fitting distribution when method is set to the ks_statistic HOT 1
- fit(progress=X) does nothing HOT 1
- Why there is a lack of some common distributions in library?
- I think BIC is defined incorrectly HOT 1
- How can i extract the median of the distribution?
- Fit distribution of discrete values HOT 1
- "bic" values not returned by summary() HOT 1
- [Feature Request]: Compact set of most diverse distributions to try on a limited budget HOT 2
- NameError: name 'logger' is not defined HOT 1
- summary crash HOT 3
- "Progress = False" not working
- The ks_test results obtained from the module are different from the results while using the ks_test myself
- The cumulative distribution function of geninvgauss is outputting values slightly greater than 1
- The cumulative distribution function of norminvgauss often decreases
- Requiring Pandas >= 2.0.3 might make Fitter unusable
- New loguru logging seems not to play nice with Python logging. HOT 1
- update conda recipe feedstock to current version
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