QIIME 2 2023.9 installation issue

Technical Support
1

Hello,

That's wonderful to see 2023.9 now out!

I just made a first attempt to install the amplicon distribution on our Linux x86_64 cluster, and received the following error:

$ uname -a
Linux barnacle2 3.10.0-1160.31.1.el7.x86_64 #1 SMP Thu Jun 10 13:32:12 UTC 2021 x86_64 x86_64 x86_64 GNU/Linux
$ mamba --version
mamba 1.4.9
conda 23.7.2
$ cat .condarc  # see https://bioconda.github.io/#usage
channels:
  - conda-forge
  - bioconda
  - defaults
channel_priority: strict
$ wget https://data.qiime2.org/distro/amplicon/qiime2-amplicon-2023.9-py38-linux-conda.yml
$ mamba env create -n qiime2-amplicon-2023.9 --file qiime2-amplicon-2023.9-py38-linux-conda.yml
# ...snip... the following warning is repeated a lot
warning  libmamba Problem type not implemented SOLVER_RULE_STRICT_REPO_PRIORITY
Could not solve for environment specs
The following packages are incompatible
├─ bioconductor-delayedmatrixstats 1.20.0**  is not installable because it requires
│  └─ r-matrixstats >=0.60.0 , which conflicts with any installable versions previously reported;
├─ bioconductor-phyloseq 1.42.0**  is not installable because it requires
│  └─ r-ade4 >=1.7-4 , which conflicts with any installable versions previously reported;
├─ bleach 6.0.0**  is not installable because it conflicts with any installable versions previously reported;
├─ c-ares 1.19.1**  is not installable because it conflicts with any installable versions previously reported;
├─ deblur 1.1.1**  is not installable because it requires
│  └─ scikit-bio >=0.5.0 , which conflicts with any installable versions previously reported;
├─ glpk 5.0**  is not installable because it conflicts with any installable versions previously reported;
├─ jq 1.6**  is not installable because it conflicts with any installable versions previously reported;
├─ libdb 6.2.32**  is not installable because it conflicts with any installable versions previously reported;
├─ libdeflate 1.17**  is not installable because it conflicts with any installable versions previously reported;
├─ munkres 1.1.4**  is not installable because it conflicts with any installable versions previously reported;
├─ paramiko 3.3.1**  is not installable because it requires
│  └─ pynacl >=1.5 , which conflicts with any installable versions previously reported;
├─ perl-carp 1.50**  is not installable because it conflicts with any installable versions previously reported;
├─ perl-compress-raw-zlib 2.202**  is not installable because it conflicts with any installable versions previously reported;
├─ perl-exporter 5.74**  is not installable because it conflicts with any installable versions previously reported;
├─ perl-extutils-makemaker 7.70**  is not installable because it conflicts with any installable versions previously reported;
├─ perl-parent 0.241**  is not installable because it conflicts with any installable versions previously reported;
├─ perl-scalar-list-utils 1.63**  is not installable because it conflicts with any installable versions previously reported;
├─ q2-composition 2023.9.0**  is not installable because it requires
│  └─ biom-format 2.1.14.* , which conflicts with any installable versions previously reported;
├─ q2-dada2 2023.9.0**  is not installable because it requires
│  └─ r-optparse >=1.7.1 , which conflicts with any installable versions previously reported;
├─ q2-diversity 2023.9.0**  is not installable because it requires
│  └─ r-vegan >=2.5_3 , which conflicts with any installable versions previously reported;
├─ q2-emperor 2023.9.0**  is not installable because it requires
│  └─ emperor 1.0.3 , which conflicts with any installable versions previously reported;
├─ r-bh 1.81.0_1**  is not installable because it conflicts with any installable versions previously reported;
├─ r-bit 4.0.5**  is not installable because it conflicts with any installable versions previously reported;
├─ r-bit64 4.0.5**  is not installable because it conflicts with any installable versions previously reported;
├─ r-checkmate 2.2.0**  is not installable because it conflicts with any installable versions previously reported;
├─ r-data.table 1.14.8**  is not installable because it conflicts with any installable versions previously reported;
├─ r-deldir 1.0_9**  is not installable because it conflicts with any installable versions previously reported;
├─ r-digest 0.6.33**  is not installable because it conflicts with any installable versions previously reported;
├─ r-dorng 1.8.6**  is not installable because it conflicts with any installable versions previously reported;
├─ r-dplyr 1.1.3**  is not installable because it conflicts with any installable versions previously reported;
├─ r-e1071 1.7_13**  is not installable because it conflicts with any installable versions previously reported;
├─ r-fnn 1.1.3.2**  is not installable because it conflicts with any installable versions previously reported;
├─ r-futile.logger 1.4.3**  is not installable because it conflicts with any installable versions previously reported;
├─ r-futile.options 1.0.1**  is not installable because it conflicts with any installable versions previously reported;
├─ r-ggplot2 3.4.3**  is not installable because it conflicts with any installable versions previously reported;
├─ r-ggrepel 0.9.3**  is not installable because it conflicts with any installable versions previously reported;
├─ r-htmltools 0.5.6**  is not installable because it conflicts with any installable versions previously reported;
├─ r-htmlwidgets 1.6.2**  is not installable because it conflicts with any installable versions previously reported;
├─ r-hwriter 1.3.2.1**  is not installable because it conflicts with any installable versions previously reported;
├─ r-jpeg 0.1_10**  is not installable because it conflicts with any installable versions previously reported;
├─ r-jsonlite 1.8.7**  is not installable because it conflicts with any installable versions previously reported;
├─ r-knitr 1.44**  is not installable because it conflicts with any installable versions previously reported;
├─ r-lambda.r 1.2.4**  is not installable because it conflicts with any installable versions previously reported;
├─ r-magrittr 2.0.3**  is not installable because it conflicts with any installable versions previously reported;
├─ r-permute 0.9_7**  is not installable because it conflicts with any installable versions previously reported;
├─ r-pheatmap 1.0.12**  is not installable because it conflicts with any installable versions previously reported;
├─ r-png 0.1_8**  is not installable because it conflicts with any installable versions previously reported;
├─ r-prettyunits 1.2.0**  is not installable because it conflicts with any installable versions previously reported;
├─ r-progress 1.2.2**  is not installable because it conflicts with any installable versions previously reported;
├─ r-proxy 0.4_27**  is not installable because it conflicts with any installable versions previously reported;
├─ r-rappdirs 0.3.3**  is not installable because it conflicts with any installable versions previously reported;
├─ r-rcppparallel 5.1.6**  is not installable because it conflicts with any installable versions previously reported;
├─ r-readr 2.1.4**  is not installable because it conflicts with any installable versions previously reported;
├─ r-rematch2 2.1.2**  is not installable because it conflicts with any installable versions previously reported;
├─ r-rmarkdown 2.25**  is not installable because it conflicts with any installable versions previously reported;
├─ r-rtsne 0.16**  is not installable because it conflicts with any installable versions previously reported;
├─ r-scales 1.2.1**  is not installable because it conflicts with any installable versions previously reported;
├─ r-snow 0.4_4**  is not installable because it conflicts with any installable versions previously reported;
├─ r-statmod 1.5.0**  is not installable because it conflicts with any installable versions previously reported;
├─ r-stringr 1.5.0**  is not installable because it conflicts with any installable versions previously reported;
├─ r-tibble 3.2.1**  is not installable because it conflicts with any installable versions previously reported;
├─ r-viridis 0.6.4**  is not installable because it conflicts with any installable versions previously reported;
├─ r-yaml 2.3.7**  is not installable because it conflicts with any installable versions previously reported;
├─ tqdm 4.66.1**  is not installable because it conflicts with any installable versions previously reported;
├─ urllib3 2.0.6**  is not installable because it conflicts with any installable versions previously reported;
├─ xmltodict 0.13.0**  is not installable because it conflicts with any installable versions previously reported;
└─ xopen 1.7.0**  is not installable because it conflicts with any installable versions previously reported.

Best,
Daniel

1 Like
2

Hey @wasade!

Thanks for reaching out and bringing this to our attention! It looks like there has been some very unfortunate timing with the latest version of conda that seems to be causing some conflicts with conda and mamba in the same environment. We're currently working on a fix for our latest install instructions, but in the meantime - I'd recommend removing mamba from the cluster, and then attempting to re-install QIIME 2 2023.9 with conda env create like with previous versions of QIIME 2.

Please keep us posted on if this works or if you are still running into any issues!

1 Like
3

Hi @lizgehret,

Thanks, but that's regrettably not viable due to pending compute and associated environment dependencies in place. I'll hold off on 2023.9 until a fix is in place, thanks!

Best,
Daniel

4

Hey @wasade,

We've reverted our install instructions to just use conda instead of mamba for installing the latest QIIME 2 release. With that being said - I went back through the traceback you provided and noticed that you weren't using the latest version of conda where the install conflicts would have come up, so I suspect there are pre-existing package versions in your cluster environment that are causing these install conflicts.

A couple of suggestions:

  • I would modify your .condarc file to remove the strict channel priority. Since you have pre-existing packages/dependencies on this cluster, conda may not be able to solve the environment just using the channel order provided.
  • After updating your .condarc file, try re-installing QIIME 2 2023.9 just using conda (i.e. conda env create).

Hope this helps! Cheers :lizard:

5

Thanks, @lizgehret. Removal of the recommended settings for bioconda, and attempting to use conda env create led to an exception from conda. The mamba env create proceeds, and downloads files, but then throws an exception on install (meaningful stuff below).

As a sanity check, I reinstituted the bioconda recommended config, and just tried to create a new environment with an arbitrary package, and that now no longer works. mamba clean -a and conda clean -a both crash too.

...snip...
Summary:

  Install: 697 packages

  Total download: 88kB

─────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────


xcb-util-wm                                         56.0kB @ 218.1kB/s  0.3s
xcb-util-keysyms                                    11.8kB @  43.2kB/s  0.3s
xcb-util                                            20.1kB @  73.3kB/s  0.3s

# >>>>>>>>>>>>>>>>>>>>>> ERROR REPORT <<<<<<<<<<<<<<<<<<<<<<

    Traceback (most recent call last):
      File "/home/mcdonadt/miniconda3/lib/python3.11/site-packages/conda/exception_handler.py", line 17, in __call__
        return func(*args, **kwargs)
               ^^^^^^^^^^^^^^^^^^^^^
      File "/home/mcdonadt/miniconda3/lib/python3.11/site-packages/conda_env/cli/main.py", line 56, in do_call
        exit_code = getattr(module, func_name)(arguments, parser)
                    ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
      File "/home/mcdonadt/miniconda3/lib/python3.11/site-packages/conda/notices/core.py", line 124, in wrapper
        return func(*args, **kwargs)
               ^^^^^^^^^^^^^^^^^^^^^
      File "/home/mcdonadt/miniconda3/lib/python3.11/site-packages/conda_env/cli/main_create.py", line 162, in execute
        result[installer_type] = installer.install(
                                 ^^^^^^^^^^^^^^^^^^
      File "/home/mcdonadt/miniconda3/lib/python3.11/site-packages/mamba/mamba_env.py", line 173, in mamba_install
        handle_txn(conda_transaction, prefix, args, True)
      File "/home/mcdonadt/miniconda3/lib/python3.11/site-packages/mamba/linking.py", line 38, in handle_txn
        unlink_link_transaction.download_and_extract()
      File "/home/mcdonadt/miniconda3/lib/python3.11/site-packages/conda/core/link.py", line 251, in download_and_extract
        self._pfe.execute()
      File "/home/mcdonadt/miniconda3/lib/python3.11/site-packages/conda/core/package_cache_data.py", line 755, in execute
        self.prepare()
      File "/home/mcdonadt/miniconda3/lib/python3.11/site-packages/conda/common/io.py", line 84, in decorated
        return f(*args, **kwds)
               ^^^^^^^^^^^^^^^^
      File "/home/mcdonadt/miniconda3/lib/python3.11/site-packages/conda/core/package_cache_data.py", line 734, in prepare
        self.paired_actions.update(
      File "/home/mcdonadt/miniconda3/lib/python3.11/site-packages/conda/core/package_cache_data.py", line 735, in <genexpr>
        (prec, self.make_actions_for_record(prec)) for prec in self.link_precs
               ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
      File "/home/mcdonadt/miniconda3/lib/python3.11/site-packages/conda/core/package_cache_data.py", line 588, in make_actions_for_record
        extracted_pcrec = next(
                          ^^^^^
      File "/home/mcdonadt/miniconda3/lib/python3.11/site-packages/conda/core/package_cache_data.py", line 589, in <genexpr>
        (
      File "/home/mcdonadt/miniconda3/lib/python3.11/site-packages/conda/core/package_cache_data.py", line 592, in <genexpr>
        PackageCacheData(pkgs_dir).query(pref_or_spec)
        ^^^^^^^^^^^^^^^^^^^^^^^^^^
      File "/home/mcdonadt/miniconda3/lib/python3.11/site-packages/conda/core/package_cache_data.py", line 81, in __call__
        package_cache_instance = super().__call__(pkgs_dir)
                                 ^^^^^^^^^^^^^^^^^^^^^^^^^^
      File "/home/mcdonadt/miniconda3/lib/python3.11/site-packages/conda/core/package_cache_data.py", line 94, in __init__
        self._urls_data = UrlsData(pkgs_dir)
                          ^^^^^^^^^^^^^^^^^^
      File "/home/mcdonadt/miniconda3/lib/python3.11/site-packages/conda/core/package_cache_data.py", line 523, in __init__
        self._urls_data = [line.strip().decode("utf-8") for line in fh]
                          ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
      File "/home/mcdonadt/miniconda3/lib/python3.11/site-packages/conda/core/package_cache_data.py", line 523, in <listcomp>
        self._urls_data = [line.strip().decode("utf-8") for line in fh]
                           ^^^^^^^^^^^^^^^^^^^^^^^^^^^^
    UnicodeDecodeError: 'utf-8' codec can't decode byte 0xb3 in position 2: invalid start byte

`$ /home/mcdonadt/miniconda3/bin/mamba create -n qiime2-amplicon-2023.9 --file qiime2-amplicon-2023.9-py38-linux-conda.yml`

  environment variables:
                 CIO_TEST=<not set>
  CONDA_AUTO_UPDATE_CONDA=false
        CONDA_DEFAULT_ENV=qiime2-2023.5
                CONDA_EXE=/home/mcdonadt/miniconda3/bin/conda
             CONDA_PREFIX=/home/mcdonadt/miniconda3/envs/qiime2-2023.5
           CONDA_PREFIX_1=/home/mcdonadt/miniconda3
    CONDA_PROMPT_MODIFIER=(qiime2-2023.5)
         CONDA_PYTHON_EXE=/home/mcdonadt/miniconda3/bin/python
               CONDA_ROOT=/home/mcdonadt/miniconda3
              CONDA_SHLVL=2
           CURL_CA_BUNDLE=<not set>
     JAVA_LD_LIBRARY_PATH=/home/mcdonadt/miniconda3/envs/qiime2-2023.5/lib/jvm/lib/server
          LD_LIBRARY_PATH=/opt/slurm-20.11.7/lib:
               LD_PRELOAD=<not set>
                  MANPATH=/opt/slurm-20.11.7/share/man:
               MODULEPATH=/opt/modules/Modules/versions:/opt/modules/Modules/$MODULE_VERSION/mod
                          ulefiles:/opt/modules/Modules/modulefiles
                     PATH=/usr/lib64/qt-
                          3.3/bin:/home/mcdonadt/perl5/bin:/home/mcdonadt/miniconda3/envs/qiime2
                          -2023.5/bin:/home/mcdonadt/miniconda3/condabin:/usr/local/bin:/usr/bin
                          :/home/mcdonadt/meta-storms-std/bin:/home/mcdonadt/.local/share/kitty-
                          ssh-kitten/kitty/bin:/usr/local/sbin:/usr/sbin:/opt/slurm-
                          20.11.7/bin:/opt/slurm-20.11.7/sbin
         PYTHONNOUSERSITE=/home/mcdonadt/miniconda3/envs/qiime2-2023.5/lib/python*/site-
                          packages/
           QT_PLUGIN_PATH=/usr/lib64/kde4/plugins:/usr/lib/kde4/plugins
       REQUESTS_CA_BUNDLE=<not set>
       SOURCETRACKER_PATH=/home/mcdonadt/sourcetracker-0.9.5/
            SSL_CERT_FILE=<not set>

     active environment : qiime2-2023.5
    active env location : /home/mcdonadt/miniconda3/envs/qiime2-2023.5
            shell level : 2
       user config file : /home/mcdonadt/.condarc
 populated config files : 
          conda version : 23.7.2
    conda-build version : not installed
         python version : 3.11.4.final.0
       virtual packages : __archspec=1=x86_64
                          __glibc=2.17=0
                          __linux=3.10.0=0
                          __unix=0=0
       base environment : /home/mcdonadt/miniconda3  (writable)
      conda av data dir : /home/mcdonadt/miniconda3/etc/conda
  conda av metadata url : None
           channel URLs : https://repo.anaconda.com/pkgs/main/linux-64
                          https://repo.anaconda.com/pkgs/main/noarch
                          https://repo.anaconda.com/pkgs/r/linux-64
                          https://repo.anaconda.com/pkgs/r/noarch
          package cache : /home/mcdonadt/miniconda3/pkgs
                          /home/mcdonadt/.conda/pkgs
       envs directories : /home/mcdonadt/miniconda3/envs
                          /home/mcdonadt/.conda/envs
               platform : linux-64
             user-agent : conda/23.7.2 requests/2.31.0 CPython/3.11.4 Linux/3.10.0-1160.31.1.el7.x86_64 centos/7.9.2009 glibc/2.17
                UID:GID : 1156392:550
             netrc file : None
           offline mode : False


An unexpected error has occurred. Conda has prepared the above report.
If you suspect this error is being caused by a malfunctioning plugin,
consider using the --no-plugins option to turn off plugins.

Example: conda --no-plugins install <package>

Alternatively, you can set the CONDA_NO_PLUGINS environment variable on
the command line to run the command without plugins enabled.

Example: CONDA_NO_PLUGINS=true conda install <package>
6

...finding and deleting the offending corrupt file seems to have begun to restore functionality. I am not going to attempt another 2023.9 install near term though, I cannot risk it breaking my other environments right now.

7

Hey @wasade,

I'm afraid I can't reproduce this issue either.

I do notice a few things that seem unusual:

Do you by chance have an shell init that auto-loads the last qiime environment? Conda/mamba really don't like working outside of the base environment, so that may be some of the problem.

This looks very much like a package download issue, which matches your observation of a corrupted file. Either the network or the filesystem failed us here. My gut is it's genomeinfodb-data because it's basically always that whenever we see this. Only remedy is to try again when one of the package mirrors is feeling like serving the correct bytes.

Also, going back to the base environment, what happens to be in that? I realize we don't want to change anything there, but we ought to be able to create a new pseudo-base environment if the packages in there are indeed just too old to work. (The first issue definitely looks like an older solver issue)

For reference, we build everything with these versions:

You could in principle create a small environment with only those and try installing the QIIME 2 env again (using the conda binaries (with mamba solver active) from the above).

2 Likes
8

Thanks, @ebolyen. The install attempt was occurring while the qiime2-2023.5 env was active, but this hasn't in the past inhibited creation of other environments. The q2 environment is not autoloaded.

Makes sense re: the corrupt package. By eye, I couldn't spot the affected issue, and a brief hack of the conda library to print the affected line wasn't helpful. I didn't have time to examine closer so I just deleted the affected file and it worked again.

FWIW, the mamba "fresh install" is new as of early August. So the oldest stuff would be at most approximately 70 days old.

I can't test a Q2 install with base active right now as I cannot risk disruption. I can try again in a few weeks. But as an example, creating a new environment when another is active works w/o issue:

(woltka) 11:41:03 (dtmcdonald@barnacle2):~$ mamba activate base
(base) 11:43:03 (dtmcdonald@barnacle2):~$ mamba activate woltka
(woltka) 11:43:27 (dtmcdonald@barnacle2):~$ mamba create --name a-test-env bowtie2

Looking for: ['bowtie2']

conda-forge/linux-64                                        Using cache
conda-forge/noarch                                          Using cache
bioconda/linux-64                                           Using cache
bioconda/noarch                                             Using cache
pkgs/main/linux-64                                            No change
pkgs/main/noarch                                              No change
pkgs/r/linux-64                                               No change
pkgs/r/noarch                                                 No change
Transaction

  Prefix: /home/mcdonadt/miniconda3/envs/a-test-env

  Updating specs:

   - bowtie2


  Package               Version  Build                  Channel           Size
────────────────────────────────────────────────────────────────────────────────
  Install:
────────────────────────────────────────────────────────────────────────────────

  + _libgcc_mutex           0.1  conda_forge            conda-forge     Cached
  + libstdcxx-ng         13.2.0  h7e041cc_2             conda-forge     Cached
  + python_abi             3.10  4_cp310                conda-forge     Cached
  + ld_impl_linux-64       2.40  h41732ed_0             conda-forge     Cached
  + ca-certificates   2023.7.22  hbcca054_0             conda-forge     Cached
  + libgomp              13.2.0  h807b86a_2             conda-forge     Cached
  + _openmp_mutex           4.5  2_gnu                  conda-forge     Cached
  + libgcc-ng            13.2.0  h807b86a_2             conda-forge     Cached
  + icu                    73.2  h59595ed_0             conda-forge     Cached
  + libiconv               1.17  h166bdaf_0             conda-forge     Cached
  + openssl               3.1.3  hd590300_0             conda-forge     Cached
  + libnsl                2.0.0  hd590300_1             conda-forge     Cached
  + libffi                3.4.2  h7f98852_5             conda-forge     Cached
  + bzip2                 1.0.8  h7f98852_4             conda-forge     Cached
  + ncurses                 6.4  hcb278e6_0             conda-forge     Cached
  + libuuid              2.38.1  h0b41bf4_0             conda-forge     Cached
  + xz                    5.2.6  h166bdaf_0             conda-forge     Cached
  + libzlib              1.2.13  hd590300_5             conda-forge     Cached
  + perl                 5.32.1  4_hd590300_perl5       conda-forge     Cached
  + readline                8.2  h8228510_1             conda-forge     Cached
  + libxml2              2.11.5  h232c23b_1             conda-forge     Cached
  + libsqlite            3.43.2  h2797004_0             conda-forge     Cached
  + tk                   8.6.13  h2797004_0             conda-forge     Cached
  + zstd                  1.5.5  hfc55251_0             conda-forge     Cached
  + zlib                 1.2.13  hd590300_5             conda-forge     Cached
  + libhwloc              2.9.3  default_h554bfaf_1009  conda-forge     Cached
  + tbb               2021.10.0  h00ab1b0_1             conda-forge     Cached
  + tzdata                2023c  h71feb2d_0             conda-forge     Cached
  + python              3.10.12  hd12c33a_0_cpython     conda-forge     Cached
  + wheel                0.41.2  pyhd8ed1ab_0           conda-forge     Cached
  + setuptools           68.2.2  pyhd8ed1ab_0           conda-forge     Cached
  + pip                  23.2.1  pyhd8ed1ab_0           conda-forge     Cached
  + bowtie2               2.5.1  py310ha0a81b8_2        bioconda        Cached

  Summary:

  Install: 33 packages

  Total download: 0 B

────────────────────────────────────────────────────────────────────────────────


Confirm changes: [Y/n] y
/home/mcdonadt/miniconda3/pkgs/urls.txt

Downloading and Extracting Packages

Preparing transaction: - /home/mcdonadt/.conda/pkgs/urls.txt
done
Verifying transaction: done
Executing transaction: done

To activate this environment, use

     $ mamba activate a-test-env

To deactivate an active environment, use

     $ mamba deactivate
9

Ok, thanks for the info, that all sounds fine.

Given it's a recent mamba version, it does seem unlikely that there's an issue with that, but I can't say for certain without comparing strings.

I think it would still be safe to create a new (non-base) env with mamba/conda (just like you did with bowtie2), but I understand if that's not worth it at the moment.

10

Hey Daniel,
Don’t know if this will help but
I just installed on Pop-OS, mamba 1.5.2, conda 23.9.0 and the amplicon/distro seem to install correctly.

2 Likes
11

An off-topic reply has been split into a new topic: QIIME 2 2023.9 install issue on CentOS 8 cluster

Please keep replies on-topic in the future.

12

just wanted to add the terminal printout to my reply.

mamba-terminal.txt (133.8 KB)

13

This topic was automatically closed 31 days after the last reply. New replies are no longer allowed.

14

I traced the issue. Sorry for the delay.

The bionconda usage instructions state to modify ~/.condarc. Those changes appear to be incompatible for QIIME 2 when installing with micromamba, mamba, as well as conda. The installation only worked once I rm'd my ~/.condarc file.

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