Problem installing QIIME2 on windows

Hi,

I've been trying to install Qiime2, I am on a Windows 10 Home
Processor Intel(R) Core(TM) i7-10510U CPU @ 1.80GHz 2.30 GHz
Installed RAM 16.0 GB (15.7 GB usable)
System type 64-bit operating system, x64-based processor
I installed Miniconda3 with python 3.9 (then tried 3.8 to see if it helps), updated conda with:
conda update conda
then installed wget with conda install -c menpo wget and run:
wget https://data.qiime2.org/distro/core/qiime2-2022.2-py38-linux-conda.yml

conda env create -n qiime2-2022.2 --file qiime2-2022.2-py38-linux-conda.yml

The conda environment can't be created and this is the resulting output:
(base) C:\Users\sapir>conda env create -n qiime2-2022.2 --file qiime2-2022.2-py38-linux-conda.yml -v
Collecting package metadata (repodata.json): ...working... done
Solving environment: ...working... failed
Traceback (most recent call last):
File "C:\Users\sapir\miniconda3\lib\site-packages\conda\exceptions.py", line 1082, in call
return func(*args, **kwargs)
File "C:\Users\sapir\miniconda3\lib\site-packages\conda_env\cli\main.py", line 80, in do_call
exit_code = getattr(module, func_name)(args, parser)
File "C:\Users\sapir\miniconda3\lib\site-packages\conda_env\cli\main_create.py", line 142, in execute
result[installer_type] = installer.install(prefix, pkg_specs, args, env)
File "C:\Users\sapir\miniconda3\lib\site-packages\conda_env\installers\conda.py", line 50, in install
unlink_link_transaction = solver.solve_for_transaction(
File "C:\Users\sapir\miniconda3\lib\site-packages\conda\core\solve.py", line 152, in solve_for_transaction
unlink_precs, link_precs = self.solve_for_diff(update_modifier, deps_modifier,
File "C:\Users\sapir\miniconda3\lib\site-packages\conda\core\solve.py", line 195, in solve_for_diff
final_precs = self.solve_final_state(update_modifier, deps_modifier, prune, ignore_pinned,
File "C:\Users\sapir\miniconda3\lib\site-packages\conda\core\solve.py", line 313, in solve_final_state
ssc = self._add_specs(ssc)
File "C:\Users\sapir\miniconda3\lib\site-packages\conda\core\solve.py", line 603, in _add_specs
explicit_pool = ssc.r._get_package_pool(self.specs_to_add)
File "C:\Users\sapir\miniconda3\lib\site-packages\conda\resolve.py", line 555, in _get_package_pool
pool = self.get_reduced_index(specs)
File "C:\Users\sapir\miniconda3\lib\site-packages\conda\common\io.py", line 88, in decorated
return f(*args, **kwds)
File "C:\Users\sapir\miniconda3\lib\site-packages\conda\resolve.py", line 576, in get_reduced_index
explicit_specs, features = self.verify_specs(explicit_specs)
File "C:\Users\sapir\miniconda3\lib\site-packages\conda\resolve.py", line 288, in verify_specs
raise ResolvePackageNotFound(bad_deps)
conda.exceptions.ResolvePackageNotFound:

  • vsearch=2.7.0
  • q2-fragment-insertion=2022.2.0
  • fasttree=2.1.10
  • unifrac=0.20.3
  • pbzip2=1.1.13
  • q2templates=2022.2.0
  • q2-alignment=2022.2.0
  • q2-gneiss=2022.2.0
  • bioconductor-zlibbioc=1.40.0
  • q2-metadata=2022.2.0
  • ncurses=6.2
  • q2-composition=2022.2.0
  • perl-compress-raw-zlib=2.101
  • libgomp=11.2.0
  • perl-io-compress=2.102
  • q2-types=2022.2.0
  • q2-cutadapt=2022.2.0
  • _openmp_mutex=4.5
  • sed=4.8
  • sepp=4.3.10
  • raxml=8.2.12
  • q2-feature-classifier=2022.2.0
  • hmmer=3.1b2
  • gxx_linux-64=9.4.0
  • q2-diversity-lib=2022.2.0
  • perl-json-xs=2.34
  • dbus=1.13.6
  • q2-sample-classifier=2022.2.0
  • libstdcxx-devel_linux-64=9.4.0
  • nss=3.74
  • q2-longitudinal=2022.2.0
  • binutils_impl_linux-64=2.36.1
  • q2-diversity=2022.2.0
  • samtools=1.14
  • entrez-direct=16.2
  • bioconductor-xvector=0.34.0
  • libgcc-devel_linux-64=9.4.0
  • gxx_impl_linux-64=9.4.0
  • q2-taxa=2022.2.0
  • bioconductor-biocparallel=1.28.0
  • bioconductor-biobase=2.54.0
  • gfortran_linux-64=9.4.0
  • bioconductor-rhtslib=1.26.0
  • blast=2.12.0
  • ld_impl_linux-64=2.36.1
  • q2-mystery-stew=2022.2.0
  • libgfortran-ng=11.2.0
  • libnsl=2.0.0
  • perl-compress-raw-bzip2=2.101
  • bioconductor-s4vectors=0.32.0
  • bioconductor-biostrings=2.62.0
  • gfortran_impl_linux-64=9.4.0
  • libgfortran5=11.2.0
  • perl-scalar-list-utils=1.61
  • perl-encode=3.16
  • bowtie2=2.4.5
  • perl-pathtools=3.75
  • bioconductor-genomicalignments=1.30.0
  • gcc_impl_linux-64=9.4.0
  • gcc_linux-64=9.4.0
  • bioconductor-shortread=1.52.0
  • bioconductor-iranges=2.28.0
  • bioconductor-dada2=1.22.0
  • bioconductor-rsamtools=2.10.0
  • q2cli=2022.2.0
  • q2-deblur=2022.2.0
  • tktable=2.10
  • readline=8.1
  • libgcc-ng=11.2.0
  • perl-list-moreutils-xs=0.430
  • libuuid=2.32.1
  • bioconductor-genomicranges=1.46.0
  • qiime2=2022.2.0
  • libxkbcommon=1.0.3
  • q2-demux=2022.2.0
  • libgcc=7.2.0
  • q2-quality-filter=2022.2.0
  • hdmedians=0.14.2
  • nspr=4.32
  • q2-phylogeny=2022.2.0
  • libev=4.33
  • sortmerna=2.0
  • q2-vsearch=2022.2.0
  • dnaio=0.7.1
  • libstdcxx-ng=11.2.0
  • q2galaxy=2022.2.0
  • emperor=1.0.3
  • libedit=3.1.20191231
  • binutils_linux-64=2.36
  • iqtree=2.2.0_beta
  • q2-feature-table=2022.2.0
  • bioconductor-delayedarray=0.20.0
  • libsanitizer=9.4.0
  • q2-quality-control=2022.2.0
  • alsa-lib=1.2.3
  • q2-emperor=2022.2.0
  • scikit-bio=0.5.6
  • libnghttp2=1.46.0
  • mafft=7.490
  • htslib=1.14
  • cutadapt=3.5
  • q2-dada2=2022.2.0
    A colleague with a Mac Air was able to follow the same commands and process smoothly and did install correctly. What can I do to successfully install on my Windows machine?

Thank you,
Sapir

@Sapir,

Currently, there is not native Windows support for QIIME 2, the good news is that you can use Windows Subsystem for Linux(WSL) to install it, which works great(some of our devs do this!). For information on how to install using WSL check out the docs!

1 Like

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