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OliveiraDS-hub / ChimeraTE

A pipeline to detect chimeric transcripts derived from genes and transposable elements.
GNU General Public License v3.0
21 stars 6 forks source link

Conda Download Error from .yml file #13

Closed AndrewGarven closed 9 months ago

AndrewGarven commented 10 months ago

I assume I have done something wrong. However, I am having trouble generating an appropriate conda environment from the .yml file provided. I am getting the following error: 


Channels:
 - conda-forge
 - bioconda
 - defaults
Platform: win-64
Collecting package metadata (repodata.json): done
Solving environment: failed
Channels:
 - conda-forge
 - bioconda
 - defaults
Platform: win-64
Collecting package metadata (repodata.json): done
Solving environment: failed

LibMambaUnsatisfiableError: Encountered problems while solving:
  - nothing provides requested _libgcc_mutex ==0.1 conda_forge
  - nothing provides requested _openmp_mutex ==4.5 2_gnu
  - nothing provides requested bedtools ==2.30.0 h468198e_3
  - nothing provides requested blast ==2.13.0 hf3cf87c_0
  - nothing provides requested boost-cpp ==1.74.0 h6cacc03_7
  - nothing provides requested bowtie ==1.3.1 py36h7144ea4_4
  - nothing provides requested bowtie2 ==2.5.1 py36hb79b6da_0
  - nothing provides requested bzip2 ==1.0.8 h7f98852_4
  - nothing provides requested c-ares ==1.18.1 h7f98852_0
  - nothing provides requested ca-certificates ==2022.12.7 ha878542_0
  - nothing provides requested certifi ==2021.5.30 py36h5fab9bb_0
  - nothing provides requested cufflinks ==2.2.1 py36_2
  - nothing provides requested curl ==7.87.0 h6312ad2_0
  - nothing provides requested entrez-direct ==16.2 he881be0_1
  - nothing provides requested express ==1.5.1 h9f5acd7_4
  - nothing provides requested gettext ==0.21.1 h27087fc_0
  - nothing provides requested gmp ==6.1.2 hf484d3e_1000
  - nothing provides requested gnutls ==3.5.19 h2a4e5f8_1
  - nothing provides requested h5py ==3.1.0 nompi_py36hc1bc4f5_100
  - nothing provides requested hdf5 ==1.10.6 nompi_h6a2412b_1114
  - nothing provides requested hmmer ==3.3.2 h87f3376_2
  - nothing provides requested htslib ==1.17 h6bc39ce_0
  - nothing provides requested icu ==69.1 h9c3ff4c_0
  - nothing provides requested keyutils ==1.6.1 h166bdaf_0
  - nothing provides requested kmer-jellyfish ==2.3.0 h9f5acd7_3
  - nothing provides requested krb5 ==1.20.1 hf9c8cef_0
  - nothing provides requested ld_impl_linux-64 ==2.40 h41732ed_0
  - nothing provides requested libblas ==3.9.0 16_linux64_openblas
  - nothing provides requested libcblas ==3.9.0 16_linux64_openblas
  - nothing provides requested libcurl ==7.87.0 h6312ad2_0
  - nothing provides requested libdeflate ==1.13 h166bdaf_0
  - nothing provides requested libedit ==3.1.20191231 he28a2e2_2
  - nothing provides requested libev ==4.33 h516909a_1
  - nothing provides requested libffi ==3.4.2 h7f98852_5
  - nothing provides requested libgcc-ng ==12.2.0 h65d4601_19
  - nothing provides requested libgfortran-ng ==12.2.0 h69a702a_19
  - nothing provides requested libgfortran5 ==12.2.0 h337968e_19
  - nothing provides requested libgomp ==12.2.0 h65d4601_19
  - nothing provides requested libidn2 ==2.3.4 h166bdaf_0
  - nothing provides requested libjemalloc ==5.3.0 hcb278e6_0
  - nothing provides requested liblapack ==3.9.0 16_linux64_openblas
  - nothing provides requested libnghttp2 ==1.51.0 hdcd2b5c_0
  - nothing provides requested libnsl ==2.0.0 h7f98852_0
  - nothing provides requested libopenblas ==0.3.21 pthreads_h78a6416_3
  - nothing provides requested libsqlite ==3.40.0 h753d276_0
  - nothing provides requested libssh2 ==1.10.0 haa6b8db_3
  - nothing provides requested libstdcxx-ng ==12.2.0 h46fd767_19
  - nothing provides requested libunistring ==0.9.10 h7f98852_0
  - nothing provides requested libzlib ==1.2.13 h166bdaf_4
  - nothing provides requested ncurses ==6.3 h27087fc_1
  - nothing provides requested nettle ==3.3 0
  - nothing provides requested numpy ==1.19.5 py36hfc0c790_2
  - nothing provides requested openjdk ==11.0.1 h516909a_1016
  - nothing provides requested openssl ==1.1.1t h0b41bf4_0
  - nothing provides requested pandas ==1.1.5 py36h284efc9_0
  - nothing provides requested pcre ==8.45 h9c3ff4c_0
  - nothing provides requested perl ==5.32.1 2_h7f98852_perl5
  - nothing provides perl >=5.32.1,<6.0a0 *_perl5 needed by perl-archive-tar-2.40-pl5321hdfd78af_0
  - nothing provides perl >=5.32.1,<6.0a0 *_perl5 needed by perl-carp-1.50-pl5321hd8ed1ab_0
  - nothing provides perl >=5.32.1,<6.0a0 *_perl5 needed by perl-common-sense-3.75-pl5321hd8ed1ab_0
  - nothing provides requested perl-compress-raw-bzip2 ==2.201 pl5321h166bdaf_0
  - nothing provides requested perl-compress-raw-zlib ==2.202 pl5321h166bdaf_0
  - nothing provides requested perl-encode ==3.19 pl5321h166bdaf_0
  - nothing provides perl >=5.32.1,<6.0a0 *_perl5 needed by perl-exporter-5.74-pl5321hd8ed1ab_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-extutils-makemaker-7.70-pl5321hd8ed1ab_0
  - nothing provides requested perl-io-compress ==2.201 pl5321h87f3376_0
  - nothing provides perl >=5.32.1,<6.0a0 *_perl5 needed by perl-io-zlib-1.14-pl5321hdfd78af_0
  - nothing provides perl >=5.32.1,<6.0a0 *_perl5 needed by perl-json-4.10-pl5321hdfd78af_0
  - nothing provides requested perl-json-xs ==2.34 pl5321h9f5acd7_5
  - nothing provides perl >=5.32.1,<6.0a0 *_perl5 needed by perl-list-moreutils-0.430-pl5321hdfd78af_0
  - nothing provides requested perl-list-moreutils-xs ==0.430 pl5321hec16e2b_1
  - nothing provides perl >=5.32.1,<6.0a0 *_perl5 needed by perl-parent-0.241-pl5321hd8ed1ab_0
  - nothing provides requested perl-pathtools ==3.75 pl5321h166bdaf_0
  - nothing provides requested perl-scalar-list-utils ==1.63 pl5321h166bdaf_0
  - nothing provides requested perl-storable ==3.15 pl5321h166bdaf_0
  - nothing provides perl >=5.32.1,<6.0a0 *_perl5 needed by perl-types-serialiser-1.01-pl5321hdfd78af_0
  - nothing provides requested pybedtools ==0.9.0 py36h7281c5b_1
  - nothing provides requested pysam ==0.20.0 py36h50b03f4_0
  - nothing provides requested python ==3.6.15 hb7a2778_0_cpython
  - nothing provides requested readline ==8.2 h8228510_1
  - nothing provides hmmer needed by repeatmasker-4.1.2.p1-pl5321hdfd78af_1
  - nothing provides requested rmblast ==2.11.0 h6200dbe_0
  - nothing provides requested salmon ==1.10.1 h7e5ed60_0
  - nothing provides requested samtools ==1.17 h00cdaf9_0
  - nothing provides requested seqtk ==1.3 h7132678_4
  - nothing provides requested setuptools ==49.6.0 py36h5fab9bb_3
  - nothing provides requested sqlite ==3.40.0 h4ff8645_0
  - nothing provides requested star ==2.7.10b h9ee0642_0
  - nothing provides requested tbb ==2021.7.0 h924138e_0
  - nothing provides requested tk ==8.6.12 h27826a3_0
  - nothing provides requested trf ==4.09.1 hec16e2b_2
  - nothing provides requested trinity ==2.9.1 h8b12597_1
  - nothing provides requested wget ==1.20.3 ha56f1ee_1
  - nothing provides requested xz ==5.2.6 h166bdaf_0
  - nothing provides requested zlib ==1.2.13 h166bdaf_4
  - nothing provides requested zstd ==1.5.2 h3eb15da_6

Could not solve for environment specs
The following packages are incompatible
├─ _libgcc_mutex ==0.1 conda_forge does not exist (perhaps a typo or a missing channel);
├─ _openmp_mutex ==4.5 2_gnu does not exist (perhaps a typo or a missing channel);
├─ bedtools ==2.30.0 h468198e_3 does not exist (perhaps a typo or a missing channel);
├─ blast ==2.13.0 hf3cf87c_0 does not exist (perhaps a typo or a missing channel);
├─ boost-cpp ==1.74.0 h6cacc03_7 does not exist (perhaps a typo or a missing channel);
├─ bowtie2 ==2.5.1 py36hb79b6da_0 does not exist (perhaps a typo or a missing channel);
├─ bowtie ==1.3.1 py36h7144ea4_4 does not exist (perhaps a typo or a missing channel);
├─ bzip2 ==1.0.8 h7f98852_4 does not exist (perhaps a typo or a missing channel);
├─ c-ares ==1.18.1 h7f98852_0 does not exist (perhaps a typo or a missing channel);
├─ ca-certificates ==2022.12.7 ha878542_0 does not exist (perhaps a typo or a missing channel);
├─ certifi ==2021.5.30 py36h5fab9bb_0 does not exist (perhaps a typo or a missing channel);
├─ cufflinks ==2.2.1 py36_2 does not exist (perhaps a typo or a missing channel);
├─ curl ==7.87.0 h6312ad2_0 does not exist (perhaps a typo or a missing channel);
├─ entrez-direct ==16.2 he881be0_1 does not exist (perhaps a typo or a missing channel);
├─ express ==1.5.1 h9f5acd7_4 does not exist (perhaps a typo or a missing channel);
├─ gettext ==0.21.1 h27087fc_0 does not exist (perhaps a typo or a missing channel);
├─ gmp ==6.1.2 hf484d3e_1000 does not exist (perhaps a typo or a missing channel);
├─ gnutls ==3.5.19 h2a4e5f8_1 does not exist (perhaps a typo or a missing channel);
├─ h5py ==3.1.0 nompi_py36hc1bc4f5_100 does not exist (perhaps a typo or a missing channel);
├─ hdf5 ==1.10.6 nompi_h6a2412b_1114 does not exist (perhaps a typo or a missing channel);
├─ hmmer ==3.3.2 h87f3376_2 does not exist (perhaps a typo or a missing channel);
├─ htslib ==1.17 h6bc39ce_0 does not exist (perhaps a typo or a missing channel);
├─ icu ==69.1 h9c3ff4c_0 does not exist (perhaps a typo or a missing channel);
├─ keyutils ==1.6.1 h166bdaf_0 does not exist (perhaps a typo or a missing channel);
├─ kmer-jellyfish ==2.3.0 h9f5acd7_3 does not exist (perhaps a typo or a missing channel);
├─ krb5 ==1.20.1 hf9c8cef_0 does not exist (perhaps a typo or a missing channel);
├─ ld_impl_linux-64 ==2.40 h41732ed_0 does not exist (perhaps a typo or a missing channel);
├─ libblas ==3.9.0 16_linux64_openblas does not exist (perhaps a typo or a missing channel);
├─ libcblas ==3.9.0 16_linux64_openblas does not exist (perhaps a typo or a missing channel);
├─ libcurl ==7.87.0 h6312ad2_0 does not exist (perhaps a typo or a missing channel);
├─ libdeflate ==1.13 h166bdaf_0 does not exist (perhaps a typo or a missing channel);
├─ libedit ==3.1.20191231 he28a2e2_2 does not exist (perhaps a typo or a missing channel);
├─ libev ==4.33 h516909a_1 does not exist (perhaps a typo or a missing channel);
├─ libffi ==3.4.2 h7f98852_5 does not exist (perhaps a typo or a missing channel);
├─ libgcc-ng ==12.2.0 h65d4601_19 does not exist (perhaps a typo or a missing channel);
├─ libgfortran-ng ==12.2.0 h69a702a_19 does not exist (perhaps a typo or a missing channel);
├─ libgfortran5 ==12.2.0 h337968e_19 does not exist (perhaps a typo or a missing channel);
├─ libgomp ==12.2.0 h65d4601_19 does not exist (perhaps a typo or a missing channel);
├─ libidn2 ==2.3.4 h166bdaf_0 does not exist (perhaps a typo or a missing channel);
├─ libjemalloc ==5.3.0 hcb278e6_0 does not exist (perhaps a typo or a missing channel);
├─ liblapack ==3.9.0 16_linux64_openblas does not exist (perhaps a typo or a missing channel);
├─ libnghttp2 ==1.51.0 hdcd2b5c_0 does not exist (perhaps a typo or a missing channel);
├─ libnsl ==2.0.0 h7f98852_0 does not exist (perhaps a typo or a missing channel);
├─ libopenblas ==0.3.21 pthreads_h78a6416_3 does not exist (perhaps a typo or a missing channel);
├─ libsqlite ==3.40.0 h753d276_0 does not exist (perhaps a typo or a missing channel);
├─ libssh2 ==1.10.0 haa6b8db_3 does not exist (perhaps a typo or a missing channel);
├─ libstdcxx-ng ==12.2.0 h46fd767_19 does not exist (perhaps a typo or a missing channel);
├─ libunistring ==0.9.10 h7f98852_0 does not exist (perhaps a typo or a missing channel);
├─ libzlib ==1.2.13 h166bdaf_4 does not exist (perhaps a typo or a missing channel);
├─ ncurses ==6.3 h27087fc_1 does not exist (perhaps a typo or a missing channel);
├─ nettle ==3.3 0 does not exist (perhaps a typo or a missing channel);
├─ numpy ==1.19.5 py36hfc0c790_2 does not exist (perhaps a typo or a missing channel);
├─ openjdk ==11.0.1 h516909a_1016 does not exist (perhaps a typo or a missing channel);
├─ openssl ==1.1.1t h0b41bf4_0 does not exist (perhaps a typo or a missing channel);
├─ pandas ==1.1.5 py36h284efc9_0 does not exist (perhaps a typo or a missing channel);
├─ pcre ==8.45 h9c3ff4c_0 does not exist (perhaps a typo or a missing channel);
├─ perl-archive-tar ==2.40 pl5321hdfd78af_0 is not installable because it requires
│  └─ perl >=5.32.1,<6.0a0 *_perl5, which does not exist (perhaps a missing channel);
├─ perl-carp ==1.50 pl5321hd8ed1ab_0 is not installable because it requires
│  └─ perl >=5.32.1,<6.0a0 *_perl5, which does not exist (perhaps a missing channel);
├─ perl-common-sense ==3.75 pl5321hd8ed1ab_0 is not installable because it requires
│  └─ perl >=5.32.1,<6.0a0 *_perl5, which does not exist (perhaps a missing channel);
├─ perl-compress-raw-bzip2 ==2.201 pl5321h166bdaf_0 does not exist (perhaps a typo or a missing channel);
├─ perl-compress-raw-zlib ==2.202 pl5321h166bdaf_0 does not exist (perhaps a typo or a missing channel);
├─ perl-encode ==3.19 pl5321h166bdaf_0 does not exist (perhaps a typo or a missing channel);
├─ perl-exporter-tiny ==1.002002 pl5321hd8ed1ab_0 is not installable because it requires
│  └─ perl >=5.32.1,<6.0a0 *_perl5, which does not exist (perhaps a missing channel);
├─ perl-exporter ==5.74 pl5321hd8ed1ab_0 is not installable because it requires
│  └─ perl >=5.32.1,<6.0a0 *_perl5, which does not exist (perhaps a missing channel);
├─ perl-extutils-makemaker ==7.70 pl5321hd8ed1ab_0 is not installable because it requires
│  └─ perl >=5.32.1,<6.0a0 *_perl5, which does not exist (perhaps a missing channel);
├─ perl-io-compress ==2.201 pl5321h87f3376_0 does not exist (perhaps a typo or a missing channel);
├─ perl-io-zlib ==1.14 pl5321hdfd78af_0 is not installable because it requires
│  └─ perl >=5.32.1,<6.0a0 *_perl5, which does not exist (perhaps a missing channel);
├─ perl-json-xs ==2.34 pl5321h9f5acd7_5 does not exist (perhaps a typo or a missing channel);
├─ perl-json ==4.10 pl5321hdfd78af_0 is not installable because it requires
│  └─ perl >=5.32.1,<6.0a0 *_perl5, which does not exist (perhaps a missing channel);
├─ perl-list-moreutils-xs ==0.430 pl5321hec16e2b_1 does not exist (perhaps a typo or a missing channel);
├─ perl-list-moreutils ==0.430 pl5321hdfd78af_0 is not installable because it requires
│  └─ perl >=5.32.1,<6.0a0 *_perl5, which does not exist (perhaps a missing channel);
├─ perl-parent ==0.241 pl5321hd8ed1ab_0 is not installable because it requires
│  └─ perl >=5.32.1,<6.0a0 *_perl5, which does not exist (perhaps a missing channel);
├─ perl-pathtools ==3.75 pl5321h166bdaf_0 does not exist (perhaps a typo or a missing channel);
├─ perl-scalar-list-utils ==1.63 pl5321h166bdaf_0 does not exist (perhaps a typo or a missing channel);
├─ perl-storable ==3.15 pl5321h166bdaf_0 does not exist (perhaps a typo or a missing channel);
├─ perl-types-serialiser ==1.01 pl5321hdfd78af_0 is not installable because it requires
│  └─ perl >=5.32.1,<6.0a0 *_perl5, which does not exist (perhaps a missing channel);
├─ perl ==5.32.1 2_h7f98852_perl5 does not exist (perhaps a typo or a missing channel);
├─ pybedtools ==0.9.0 py36h7281c5b_1 does not exist (perhaps a typo or a missing channel);
├─ pysam ==0.20.0 py36h50b03f4_0 does not exist (perhaps a typo or a missing channel);
├─ python ==3.6.15 hb7a2778_0_cpython does not exist (perhaps a typo or a missing channel);
├─ readline ==8.2 h8228510_1 does not exist (perhaps a typo or a missing channel);
├─ repeatmasker ==4.1.2.p1 pl5321hdfd78af_1 is not installable because it requires
│  └─ hmmer, which does not exist (perhaps a missing channel);
├─ rmblast ==2.11.0 h6200dbe_0 does not exist (perhaps a typo or a missing channel);
├─ salmon ==1.10.1 h7e5ed60_0 does not exist (perhaps a typo or a missing channel);
├─ samtools ==1.17 h00cdaf9_0 does not exist (perhaps a typo or a missing channel);
├─ seqtk ==1.3 h7132678_4 does not exist (perhaps a typo or a missing channel);
├─ setuptools ==49.6.0 py36h5fab9bb_3 does not exist (perhaps a typo or a missing channel);
├─ sqlite ==3.40.0 h4ff8645_0 does not exist (perhaps a typo or a missing channel);
├─ star ==2.7.10b h9ee0642_0 does not exist (perhaps a typo or a missing channel);
├─ tbb ==2021.7.0 h924138e_0 does not exist (perhaps a typo or a missing channel);
├─ tk ==8.6.12 h27826a3_0 does not exist (perhaps a typo or a missing channel);
├─ trf ==4.09.1 hec16e2b_2 does not exist (perhaps a typo or a missing channel);
├─ trinity ==2.9.1 h8b12597_1 does not exist (perhaps a typo or a missing channel);
├─ wget ==1.20.3 ha56f1ee_1 does not exist (perhaps a typo or a missing channel);
├─ xz ==5.2.6 h166bdaf_0 does not exist (perhaps a typo or a missing channel);
├─ zlib ==1.2.13 h166bdaf_4 does not exist (perhaps a typo or a missing channel);
└─ zstd ==1.5.2 h3eb15da_6 does not exist (perhaps a typo or a missing channel).
OliveiraDS-hub commented 9 months ago

Dear @AndrewGarven, sorry for the late response.

Can you tell me what is your operational system and version?

Thank you

OliveiraDS-hub commented 9 months ago

Dear @AndrewGarven, looks like your platform is windows. You have to change to a linux machine to run chimeraTE.

I'm closing this issue, feel free to reopen it if you have questions.