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21

Gotcha! Thanks @Nicholas_Bokulich for the clarification! I guess I'll just use the older version of qiime for downstream SCNIC analyses.

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22

Hi @thermokarst

Following your advice, I tried installing QIIME 2 version 2018.11 from here:

But get the following error:

(base) -bash-4.1$ wget https://data.qiime2.org/distro/core/qiime2-2018.11-py35-linux-conda.yml
--2020-03-16 16:03:59--  https://data.qiime2.org/distro/core/qiime2-2018.11-py35-linux-conda.yml
Resolving data.qiime2.org (data.qiime2.org)... 52.35.38.247
Connecting to data.qiime2.org (data.qiime2.org)|52.35.38.247|:443... connected.
HTTP request sent, awaiting response... 302 FOUND
Location: https://raw.githubusercontent.com/qiime2/environment-files/master/2018.11/release/qiime2-2018.11-py35-linux-conda.yml [following]
--2020-03-16 16:03:59--  https://raw.githubusercontent.com/qiime2/environment-files/master/2018.11/release/qiime2-2018.11-py35-linux-conda.yml
Resolving raw.githubusercontent.com (raw.githubusercontent.com)... 151.101.192.133, 151.101.0.133, 151.101.64.133, ...
Connecting to raw.githubusercontent.com (raw.githubusercontent.com)|151.101.192.133|:443... connected.
HTTP request sent, awaiting response... 200 OK
Length: 5663 (5.5K) [text/plain]
Saving to: ‘qiime2-2018.11-py35-linux-conda.yml’

100%[=======================================================================================================================================>] 5,663       --.-K/s   in 0s

2020-03-16 16:04:00 (59.1 MB/s) - ‘qiime2-2018.11-py35-linux-conda.yml’ saved [5663/5663]

(base) -bash-4.1$ conda env create -n qiime2-2018.11 --file qiime2-2018.11-py35-linux-conda.yml
Collecting package metadata: done
Solving environment: failed

UnsatisfiableError: The following specifications were found to be in conflict:
  - harfbuzz=1.9.0
  - q2-metadata=2018.11.0
  - qt=5.6.2
Use "conda search <package> --info" to see the dependencies for each package.

Any thoughts on why the packages are in conflict, since I'm downloading the version of qiime that the packages are supposedly a part of?

23

My guess is that bioconda and/or conda-forge have shuffled some of their packages around. I suggest you check out the VMs as a workaround. BTW - we are no longer supporting QIIME 2 2018.11, but you should still be able to download them:

https://docs.qiime2.org/2018.11/install/virtual/

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