How do I install Qiime2 on my miniconda 3?

mohamedcorleon97 · November 15, 2024, 12:00pm

Hi there,

I've been trying to get Qiime2 installed on my laptop but to no avail. I've watched a couple of tutorials online, even followed the step-by-step instructions but the program wouldn't install, and I keep getting a "Solving environment: failed" message. I have tried to install via Linux/Ubuntu route, and I have also tried the recommended miniconda installation as per the website instructions.

Would appreciate the help! Thanks!

Corleon

gregcaporaso · November 15, 2024, 5:40pm

Hi @mohamedcorleon97, Welcome to the QIIME 2 Forum!

We'll need a little more detail to help out. Is your laptop running Linux? If not, what OS is it running. I'm assuming that you're referring to the install instructions on this page - be sure to refer to the correct ones there based on your operating system.

If you've confirmed that you're using the correct install instructions from that page, can you copy/paste the command that you ran and the error that was returned in reply to this message?

Thanks!

mohamedcorleon97 · November 17, 2024, 4:23pm

Hi @gregcaporaso , thank you for taking the time to reply to my post.
My laptop is running on Windows 11, and yes that is right - I followed the instructions on how to Natively install Qiime2.

The error message is a long list of things that couldn't be installed after stating "Solving environment: failed"

Solving environment: failed

LibMambaUnsatisfiableError: Encountered problems while solving:

nothing provides requested xkeyboard-config 2.42**
nothing provides requested xcb-util-wm 0.4.1**
nothing provides requested xcb-util-renderutil 0.3.9**
nothing provides requested xcb-util-keysyms 0.4.0**
nothing provides requested xcb-util-image 0.4.0**
nothing provides requested xcb-util 0.4.0**
nothing provides requested wget 1.21.4**
nothing provides requested vsearch 2.22.1**
nothing provides requested unifrac-binaries 1.4**
nothing provides requested unifrac 1.3**
nothing provides requested tapi 1300.6.5**
nothing provides requested sortmerna 2.0**
nothing provides requested sepp 4.5.5**
nothing provides requested sed 4.8**
nothing provides requested scikit-bio 0.6.0**
nothing provides requested samtools 1.21**
nothing provides requested rpsbproc 0.5.0**
nothing provides requested rescript 2024.10.0**
nothing provides requested readline 8.2**
nothing provides requested raxml 8.2.13**
nothing provides requested qiime2 2024.10.1**
nothing provides requested q2templates 2024.10.0**
nothing provides requested q2galaxy 2024.10.0**
nothing provides requested q2cli 2024.10.1**
nothing provides requested q2-vsearch 2024.10.0**
nothing provides requested q2-vizard 2024.10.0**
nothing provides requested q2-types 2024.10.0**
nothing provides requested q2-taxa 2024.10.0**
nothing provides requested q2-stats 2024.10.0**
nothing provides requested q2-sample-classifier 2024.10.0**
nothing provides requested q2-quality-filter 2024.10.0**
nothing provides requested q2-quality-control 2024.10.0**
nothing provides requested q2-phylogeny 2024.10.0**
nothing provides requested q2-mystery-stew 2024.10.0**
nothing provides requested q2-metadata 2024.10.0**
nothing provides requested q2-longitudinal 2024.10.0**
nothing provides requested q2-fragment-insertion 2024.10.0**
nothing provides requested q2-feature-table 2024.10.0**
nothing provides requested q2-feature-classifier 2024.10.0**
nothing provides requested q2-emperor 2024.10.0**
nothing provides requested q2-diversity-lib 2024.10.0**
nothing provides requested q2-diversity 2024.10.0**
nothing provides requested q2-demux 2024.10.0**
nothing provides requested q2-deblur 2024.10.0**
nothing provides requested q2-dada2 2024.10.0**
nothing provides requested q2-cutadapt 2024.10.0**
nothing provides requested q2-composition 2024.10.0**
nothing provides requested q2-alignment 2024.10.0**
nothing provides requested pyhmmer 0.10.15**
nothing provides requested pulseaudio-client 17.0**
nothing provides requested prank 170427**
nothing provides perl >=5.32.1,<6.0a0 *_perl5 needed by perl-types-serialiser-1.01-pl5321hdfd78af_0
nothing provides requested perl-storable 3.15**
nothing provides requested perl-scalar-list-utils 1.63**
nothing provides requested perl-pathtools 3.75**
nothing provides perl >=5.32.1,<6.0a0 *_perl5 needed by perl-parent-0.242-pl5321hd8ed1ab_0
nothing provides requested perl-list-moreutils-xs 0.430**
nothing provides perl >=5.32.1,<6.0a0 *_perl5 needed by perl-list-moreutils-0.430-pl5321hdfd78af_0
nothing provides requested perl-json-xs 4.03**
nothing provides perl >=5.32.1,<6.0a0 *_perl5 needed by perl-io-zlib-1.14-pl5321hdfd78af_0
nothing provides requested perl-io-compress 2.201**
nothing provides perl >=5.32.1,<6.0a0 *_perl5 needed by perl-extutils-makemaker-7.70-pl5321hd8ed1ab_0
nothing provides perl >=5.32.1,<6.0a0 *_perl5 needed by perl-exporter-5.74-pl5321hd8ed1ab_0
nothing provides requested perl-encode 3.21**
nothing provides requested perl-compress-raw-zlib 2.202**
nothing provides requested perl-compress-raw-bzip2 2.201**
nothing provides perl >=5.32.1,<6.0a0 *_perl5 needed by perl-carp-1.50-pl5321hd8ed1ab_0
nothing provides perl-io-compress needed by perl-archive-tar-2.40-pl5321hdfd78af_0
nothing provides requested pbzip2 1.1.13**
nothing provides requested pasta 1.9.2**
nothing provides requested nss 3.100**
nothing provides requested nspr 4.36**
nothing provides requested ncurses 6.5**
nothing provides requested ncbi-vdb 3.1.1**
nothing provides requested muscle 3.8.1551**
nothing provides requested mafft 7.526**
nothing provides requested libxkbcommon 1.7.0**
nothing provides requested libxcrypt 4.4.36**
nothing provides requested libuuid 2.38.1**
nothing provides requested libunistring 0.9.10**
nothing provides requested libsystemd0 256.7**
nothing provides requested libstdcxx-ng 14.2.0**
nothing provides requested libsanitizer 14.2.0**
nothing provides requested libnsl 2.0.1**
nothing provides requested libidn2 2.3.7**
nothing provides requested libgpg-error 1.50**
nothing provides requested libgfortran-ng 14.2.0**
nothing provides requested libgcrypt 1.11.0**
nothing provides requested libgcc-ng 14.2.0**
nothing provides requested libev 4.33**
nothing provides requested libedit 3.1.20191231**
nothing provides requested libcups 2.3.3**
nothing provides requested libclang-cpp15 15.0.7**
nothing provides requested libcap 2.69**
nothing provides requested ld_impl_linux-64 2.43**
nothing provides requested keyutils 1.6.1**
nothing provides requested jq 1.7.1**
nothing provides requested iqtree 2.3.6**
nothing provides requested iow 1.0.5**
nothing provides requested htslib 1.21**
nothing provides requested hmmer 3.4**
nothing provides requested gxx_impl_linux-64 14.2.0**
nothing provides requested gfortran_impl_linux-64 14.2.0**
nothing provides requested gcc_impl_linux-64 14.2.0**
nothing provides requested gawk 5.3.1**
nothing provides requested fasttree 2.1.11**
nothing provides requested entrez-direct 22.4**
nothing provides requested emperor 1.0.4**
nothing provides requested dnaio 1.2.2**
nothing provides sortmerna 2.0 needed by deblur-1.1.1-pyhdfd78af_0
nothing provides requested dbus 1.13.6**
nothing provides requested cutadapt 4.9**
nothing provides requested clustalw 2.1**
nothing provides requested bowtie2 2.5.4**
nothing provides requested blast 2.16.0**
nothing provides requested bioconductor-zlibbioc 1.48.0**
nothing provides requested bioconductor-xvector 0.42.0**
nothing provides bioconductor-s4vectors >=0.40.0,<0.41.0 needed by bioconductor-treesummarizedexperiment-2.10.0-r430
nothing provides bioconductor-s4vectors >=0.40.0,<0.41.0 needed by bioconductor-summarizedexperiment-1.32.0-r43hdfd0
nothing provides requested bioconductor-sparsematrixstats 1.14.0**
nothing provides requested bioconductor-sparsearray 1.2.2**
nothing provides bioconductor-s4vectors >=0.40.0,<0.41.0 needed by bioconductor-singlecellexperiment-1.24.0-r43hdfd0
nothing provides requested bioconductor-shortread 1.60.0**
nothing provides requested bioconductor-scuttle 1.12.0**
nothing provides bioconductor-s4vectors >=0.40.0,<0.41.0 needed by bioconductor-scater-1.30.1-r43hdfd78af_0
nothing provides bioconductor-s4vectors >=0.40.0,<0.41.0 needed by bioconductor-scaledmatrix-1.10.0-r43hdfd78af_0
nothing provides requested bioconductor-s4vectors 0.40.2**
nothing provides requested bioconductor-s4arrays 1.2.0**
nothing provides requested bioconductor-rsamtools 2.18.0**
nothing provides requested bioconductor-rhtslib 2.4.0**
nothing provides requested bioconductor-rhdf5lib 1.24.0**
nothing provides requested bioconductor-rhdf5filters 1.14.1**
nothing provides requested bioconductor-rhdf5 2.46.1**
nothing provides bioconductor-biobase >=2.62.0,<2.63.0 needed by bioconductor-phyloseq-1.46.0-r43hdfd78af_0
nothing provides requested bioconductor-multtest 2.58.0**
nothing provides bioconductor-s4vectors >=0.40.0,<0.41.0 needed by bioconductor-multiassayexperiment-1.28.0-r43hdfd0
nothing provides bioconductor-s4vectors >=0.40.0,<0.41.0 needed by bioconductor-mia-1.10.0-r43hdfd78af_0
nothing provides requested bioconductor-iranges 2.36.0**
nothing provides requested bioconductor-genomicranges 1.54.1**
nothing provides requested bioconductor-genomicalignments 1.38.0**
nothing provides requested bioconductor-dirichletmultinomial 1.44.0**
nothing provides bioconductor-s4vectors >=0.40.0,<0.41.0 needed by bioconductor-delayedmatrixstats-1.24.0-r43hdfd780
nothing provides requested bioconductor-delayedarray 0.28.0**
nothing provides requested bioconductor-decipher 2.30.0**
nothing provides requested bioconductor-dada2 1.30.0**
nothing provides requested bioconductor-bluster 1.12.0**
nothing provides requested bioconductor-biostrings 2.70.1**
nothing provides bioconductor-rhdf5 >=2.46.0,<2.47.0 needed by bioconductor-biomformat-1.30.0-r43hdfd78af_0
nothing provides requested bioconductor-biocsingular 1.18.0**
nothing provides requested bioconductor-biocparallel 1.36.0**
nothing provides requested bioconductor-biocneighbors 1.20.0**
nothing provides requested bioconductor-biobase 2.62.0**
nothing provides requested bioconductor-beachmat 2.18.0**
nothing provides bioconductor-s4vectors >=0.40.0,<0.41.0 needed by bioconductor-ancombc-2.4.0-r43hdfd78af_0
nothing provides requested binutils_impl_linux-64 2.43**
nothing provides requested attr 2.5.1**
nothing provides requested alsa-lib 1.2.11**
nothing provides perl >=5.32.1,<6.0a0 *_perl5 needed by perl-json-4.10-pl5321hdfd78af_0
nothing provides perl >=5.32.1,<6.0a0 *_perl5 needed by perl-exporter-tiny-1.002002-pl5321hd8ed1ab_0
nothing provides perl >=5.32.1,<6.0a0 *_perl5 needed by perl-common-sense-3.75-pl5321hd8ed1ab_0
nothing provides bioconductor-s4vectors >=0.40.0,<0.41.0 needed by bioconductor-genomeinfodb-1.38.1-r43hdfd78af_0
nothing provides __unix needed by libstdcxx-devel_linux-64-14.2.0-h2171cc4_1
nothing provides __unix needed by libgcc-devel_linux-64-14.2.0-h2171cc4_1
nothing provides vc 10.* needed by pthreads-win32-2.9.1-vc10_0
package bioconductor-biocbaseutils-1.4.0-r43hdfd78af_0 requires r-base >=4.3,<4.4.0a0, but none of the providers cad
nothing provides vc 10.* needed by pthreads-win32-2.9.1-vc10_0
package r-data.table-1.15.2-r41h6d2157b_0 requires m2w64-zlib, but none of the providers can be installed
package jq-1.6-haa95532_1 requires m2w64-libwinpthread-git, but none of the providers can be installed
package libxcb-1.15-hcd874cb_0 requires m2w64-gcc-libs-core, but none of the providers can be installed
package libgfortran5-14.2.0-hf020157_1 requires libgcc >=14.2.0, but none of the providers can be installed
package r-cairo-1.6_2-r41h2f335bc_0 requires m2w64-gcc-libs, but none of the providers can be installed
package harfbuzz-8.5.0-h81778c3_0 requires icu >=73.2,<74.0a0, but none of the providers can be installed
package r-xfun-0.48-r43h8ae3a7c_0 requires libwinpthread >=12.0.0.r4.gg4f2fc60ca, but none of the providers can be d
package r-vegan-2.6_8-r43hde43a15_0 requires libwinpthread >=12.0.0.r4.gg4f2fc60ca, but none of the providers can bd
package r-sys-3.4.3-r43h11b023d_0 requires libwinpthread >=12.0.0.r4.gg4f2fc60ca, but none of the providers can be d
package r-rbibutils-2.3-r43h11b023d_0 requires libwinpthread >=12.0.0.r4.gg4f2fc60ca, but none of the providers cand
package r-ragg-1.3.3-r43h01f36c3_0 requires libwinpthread >=12.0.0.r4.gg4f2fc60ca, but none of the providers can bed
package r-ps-1.8.0-r43h11b023d_0 requires libwinpthread >=12.0.0.r4.gg4f2fc60ca, but none of the providers can be id

Could not solve for environment specs
The following packages are incompatible
├─ _openmp_mutex 4.5** is installable and it requires
│ └─ msys2-conda-epoch <0.0a0 , which can be installed;
├─ _r-mutex 1.0.1** is requested and can be installed;
├─ alsa-lib 1.2.11** does not exist (perhaps a typo or a missing channel);
├─ attr 2.5.1** does not exist (perhaps a typo or a missing channel);.....

The list goes on for much longer, listing what could be installed and what doesn't exist.

colinbrislawn · November 18, 2024, 4:08pm

This may be an obvious question, but are you installing this directly on Windows 11 or on WSL?

(Qiime2 does not run on Windows, but it DOES run on Linux on Windows, which is WSL!)

mohamedcorleon97 · November 19, 2024, 4:33am

Oh.

Well, that solves it.

Thank you. I've got it installed and running proper now.