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galaxyproject / usegalaxy-playbook

Ansible Playbook for usegalaxy.org
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Prokka 1.14.6+galaxy1 = missing dependency #354

Closed jennaj closed 2 years ago

jennaj commented 2 years ago

TEST, fails (tool test): https://github.com/mvdbeek/usegalaxy-tests/issues/18 ORG, fails (tuto data): https://usegalaxy.org/u/jen/h/test-prokka-1146galaxy1 EU, success (tuto data): https://usegalaxy.eu/u/jenj/h/test-prokka-1146galaxy1

Looks like a dependency is missing:

Bio::SearchIO: hmmer3 cannot be found Exception ------------- EXCEPTION ------------- MSG: Failed to load module Bio::SearchIO::hmmer3. Can't locate Bio/SearchIO/hmmer3.pm in @inc (you may need to install the Bio::SearchIO::hmmer3 module) (@inc contains: /usr/local/lib/perl5/5.32/site_perl /usr/local/lib/perl5/site_perl /usr/local/lib/perl5/5.32/vendor_perl /usr/local/lib/perl5/vendor_perl /usr/local/lib/perl5/5.32/core_perl /usr/local/lib/perl5/core_perl .) at /usr/local/lib/perl5/site_perl/Bio/Root/Root.pm line 520.

STACK Bio::Root::Root::_load_module /usr/local/lib/perl5/site_perl/Bio/Root/Root.pm:522 STACK (eval) /usr/local/lib/perl5/site_perl/Bio/SearchIO.pm:620 STACK Bio::SearchIO::_load_format_module /usr/local/lib/perl5/site_perl/Bio/SearchIO.pm:619 STACK Bio::SearchIO::new /usr/local/lib/perl5/site_perl/Bio/SearchIO.pm:217 STACK toplevel /usr/local/bin/prokka:1113

Fails this GTN tutorial: https://training.galaxyproject.org/training-material/topics/genome-annotation/tutorials/annotation-with-prokka/tutorial.html

jennaj commented 2 years ago

@davebx -- @natefoo said that the problem is because the tool isn't configured for Singularity yet. Could you help with that?

natefoo commented 2 years ago

This tool is in fact using the prokka Singularity image at /cvmfs/singularity.galaxyproject.org/all/prokka:1.14.6--pl5321hdfd78af_2.

It seems like the conda package that the container is derived from is missing this perl dep as described here.

@bgruening do we need to explicitly add this to the recipe?

bgruening commented 2 years ago

I think so, we need to add this to the meta.yml file. But this package does not exist in conda... so why is it working on EU?

This is my env.

# packages in environment at /usr/local/tools/_conda/envs/__prokka@1.14.6:
#
# Name                    Version                   Build  Channel
_libgcc_mutex             0.1                 conda_forge    conda-forge
_openmp_mutex             4.5                       1_gnu    conda-forge
alsa-lib                  1.2.3                h516909a_0    conda-forge
aragorn                   1.2.38               h516909a_3    bioconda
atk-1.0                   2.36.0               h3371d22_4    conda-forge
barrnap                   0.9                           3    bioconda
bedtools                  2.30.0               hc088bd4_0    bioconda
blast                     2.10.1          pl526he19e7b1_3    bioconda
bzip2                     1.0.8                h7f98852_4    conda-forge
c-ares                    1.17.1               h36c2ea0_0    conda-forge
ca-certificates           2020.12.5            ha878542_0    conda-forge
cairo                     1.16.0            h9f066cc_1006    conda-forge
certifi                   2020.12.5        py37h89c1867_1    conda-forge
clustalw                  2.1                  hc9558a2_5    bioconda
curl                      7.71.1               he644dc0_8    conda-forge
entrez-direct             13.9            pl526h375a9b1_1    bioconda
expat                     2.2.10               h9c3ff4c_0    conda-forge
font-ttf-dejavu-sans-mono 2.37                 hab24e00_0    conda-forge
font-ttf-inconsolata      2.001                hab24e00_0    conda-forge
font-ttf-source-code-pro  2.030                hab24e00_0    conda-forge
font-ttf-ubuntu           0.83                 hab24e00_0    conda-forge
fontconfig                2.13.1            hba837de_1004    conda-forge
fonts-conda-ecosystem     1                             0    conda-forge
fonts-conda-forge         1                             0    conda-forge
freetype                  2.10.4               h0708190_1    conda-forge
fribidi                   1.0.10               h36c2ea0_0    conda-forge
gdk-pixbuf                2.42.2               h0c95a7a_2    conda-forge
gettext                   0.19.8.1          h0b5b191_1005    conda-forge
giflib                    5.2.1                h36c2ea0_2    conda-forge
graphite2                 1.3.13            h58526e2_1001    conda-forge
graphviz                  2.42.3               h6939c30_2    conda-forge
gtk2                      2.24.33              hab0c2f8_0    conda-forge
gts                       0.7.6                h64030ff_2    conda-forge
harfbuzz                  2.7.2                ha5b49bf_1    conda-forge
hmmer                     3.3.2                he1b5a44_0    bioconda
icu                       67.1                 he1b5a44_0    conda-forge
infernal                  1.1.3                h516909a_0    bioconda
jpeg                      9d                   h36c2ea0_0    conda-forge
krb5                      1.17.2               h926e7f8_0    conda-forge
lcms2                     2.12                 hddcbb42_0    conda-forge
ld_impl_linux-64          2.35.1               hea4e1c9_2    conda-forge
libcurl                   7.71.1               hcdd3856_8    conda-forge
libdb                     6.2.32               h9c3ff4c_0    conda-forge
libedit                   3.1.20191231         he28a2e2_2    conda-forge
libev                     4.33                 h516909a_1    conda-forge
libffi                    3.3                  h58526e2_2    conda-forge
libgcc-ng                 9.3.0               h2828fa1_18    conda-forge
libgd                     2.2.5             h6e6070c_1008    conda-forge
libglib                   2.66.7               h1f3bc88_0    conda-forge
libgomp                   9.3.0               h2828fa1_18    conda-forge
libiconv                  1.16                 h516909a_0    conda-forge
libidn11                  1.34                 h1cef754_0    conda-forge
libnghttp2                1.43.0               h812cca2_0    conda-forge
libpng                    1.6.37               h21135ba_2    conda-forge
libssh2                   1.9.0                hab1572f_5    conda-forge
libstdcxx-ng              9.3.0               h6de172a_18    conda-forge
libtiff                   4.2.0                hdc55705_0    conda-forge
libtool                   2.4.6             h58526e2_1007    conda-forge
libuuid                   2.32.1            h7f98852_1000    conda-forge
libwebp                   1.2.0                h3452ae3_0    conda-forge
libwebp-base              1.2.0                h7f98852_0    conda-forge
libxcb                    1.13              h7f98852_1003    conda-forge
libxml2                   2.9.10               h68273f3_2    conda-forge
libxslt                   1.1.33               hf705e74_1    conda-forge
lz4-c                     1.9.3                h9c3ff4c_0    conda-forge
minced                    0.4.2                         0    bioconda
ncurses                   6.2                  h58526e2_4    conda-forge
openjdk                   11.0.8               hacce0ff_0    conda-forge
openssl                   1.1.1j               h7f98852_0    conda-forge
paml                      4.9                  h516909a_5    bioconda
pango                     1.42.4               h69149e4_5    conda-forge
parallel                  20210222             ha770c72_0    conda-forge
pcre                      8.44                 he1b5a44_0    conda-forge
perl                      5.26.2            h36c2ea0_1008    conda-forge
perl-aceperl              1.92                    pl526_2    bioconda
perl-algorithm-diff       1.1903                  pl526_2    bioconda
perl-algorithm-munkres    0.08                    pl526_1    bioconda
perl-apache-test          1.40                    pl526_1    bioconda
perl-app-cpanminus        1.7044                  pl526_1    bioconda
perl-appconfig            1.71                    pl526_1    bioconda
perl-archive-tar          2.32                    pl526_0    bioconda
perl-array-compare        3.0.1                   pl526_1    bioconda
perl-autoloader           5.74                    pl526_2    bioconda
perl-base                 2.23                    pl526_1    bioconda
perl-bio-asn1-entrezgene  1.73                    pl526_1    bioconda
perl-bio-coordinate       1.007001                pl526_1    bioconda
perl-bio-featureio        1.6.905                 pl526_2    bioconda
perl-bio-phylo            0.58                    pl526_2    bioconda
perl-bio-samtools         1.43            pl526h1341992_1    bioconda
perl-bio-tools-phylo-paml 1.7.3                   pl526_1    bioconda
perl-bio-tools-run-alignment-clustalw 1.7.4                   pl526_1    bioconda
perl-bio-tools-run-alignment-tcoffee 1.7.4                   pl526_2    bioconda
perl-bioperl              1.7.2                  pl526_11    bioconda
perl-bioperl-core         1.007002                pl526_2    bioconda
perl-bioperl-run          1.007002                pl526_4    bioconda
perl-business-isbn        3.004                   pl526_0    bioconda
perl-business-isbn-data   20140910.003            pl526_0    bioconda
perl-cache-cache          1.08                    pl526_0    bioconda
perl-capture-tiny         0.48                    pl526_0    bioconda
perl-carp                 1.38                    pl526_3    bioconda
perl-cgi                  4.44            pl526h14c3975_1    bioconda
perl-class-data-inheritable 0.08                    pl526_1    bioconda
perl-class-inspector      1.34                    pl526_0    bioconda
perl-class-load           0.25                    pl526_0    bioconda
perl-class-load-xs        0.10            pl526h6bb024c_2    bioconda
perl-class-method-modifiers 2.12                    pl526_0    bioconda
perl-clone                0.42            pl526h516909a_0    bioconda
perl-common-sense         3.74                    pl526_2    bioconda
perl-compress-raw-bzip2   2.087           pl526he1b5a44_0    bioconda
perl-compress-raw-zlib    2.087           pl526hc9558a2_0    bioconda
perl-constant             1.33                    pl526_1    bioconda
perl-convert-binary-c     0.78            pl526h6bb024c_3    bioconda
perl-convert-binhex       1.125                   pl526_1    bioconda
perl-crypt-rc4            2.02                    pl526_1    bioconda
perl-data-dumper          2.173                   pl526_0    bioconda
perl-data-optlist         0.110                   pl526_2    bioconda
perl-data-stag            0.14                    pl526_1    bioconda
perl-date-format          2.30                    pl526_2    bioconda
perl-db-file              1.855           pl526h516909a_0    bioconda
perl-dbd-sqlite           1.64            pl526h516909a_0    bioconda
perl-dbi                  1.642                   pl526_0    bioconda
perl-devel-globaldestruction 0.14                    pl526_0    bioconda
perl-devel-overloadinfo   0.005                   pl526_0    bioconda
perl-devel-stacktrace     2.04                    pl526_0    bioconda
perl-digest-hmac          1.03                    pl526_3    bioconda
perl-digest-md5           2.55                    pl526_0    bioconda
perl-digest-perl-md5      1.9                     pl526_1    bioconda
perl-digest-sha1          2.13            pl526h6bb024c_1    bioconda
perl-dist-checkconflicts  0.11                    pl526_2    bioconda
perl-dynaloader           1.25                    pl526_1    bioconda
perl-email-date-format    1.005                   pl526_2    bioconda
perl-encode               2.88                    pl526_1    bioconda
perl-encode-locale        1.05                    pl526_6    bioconda
perl-error                0.17027                 pl526_1    bioconda
perl-eval-closure         0.14            pl526h6bb024c_4    bioconda
perl-exception-class      1.44                    pl526_0    bioconda
perl-exporter             5.72                    pl526_1    bioconda
perl-exporter-tiny        1.002001                pl526_0    bioconda
perl-extutils-makemaker   7.36                    pl526_1    bioconda
perl-file-listing         6.04                    pl526_1    bioconda
perl-file-path            2.16                    pl526_0    bioconda
perl-file-slurp-tiny      0.004                   pl526_1    bioconda
perl-file-sort            1.01                    pl526_2    bioconda
perl-file-temp            0.2304                  pl526_2    bioconda
perl-file-which           1.23                    pl526_0    bioconda
perl-font-afm             1.20                    pl526_2    bioconda
perl-font-ttf             1.06                    pl526_0    bioconda
perl-gd                   2.71            pl526he860b03_0    bioconda
perl-getopt-long          2.50                    pl526_1    bioconda
perl-graph                0.9704                  pl526_1    bioconda
perl-graphviz             2.24            pl526h734ff71_0    bioconda
perl-html-element-extended 1.18                    pl526_1    bioconda
perl-html-entities-numbered 0.04                    pl526_1    bioconda
perl-html-formatter       2.16                    pl526_0    bioconda
perl-html-parser          3.72            pl526h6bb024c_5    bioconda
perl-html-tableextract    2.13                    pl526_2    bioconda
perl-html-tagset          3.20                    pl526_3    bioconda
perl-html-tidy            1.60                    pl526_0    bioconda
perl-html-tree            5.07                    pl526_1    bioconda
perl-html-treebuilder-xpath 0.14                    pl526_1    bioconda
perl-http-cookies         6.04                    pl526_0    bioconda
perl-http-daemon          6.01                    pl526_1    bioconda
perl-http-date            6.02                    pl526_3    bioconda
perl-http-message         6.18                    pl526_0    bioconda
perl-http-negotiate       6.01                    pl526_3    bioconda
perl-image-info           1.38                    pl526_1    bioconda
perl-image-size           3.300                   pl526_2    bioconda
perl-io-compress          2.087           pl526he1b5a44_0    bioconda
perl-io-html              1.001                   pl526_2    bioconda
perl-io-sessiondata       1.03                    pl526_1    bioconda
perl-io-socket-ssl        2.066                   pl526_0    bioconda
perl-io-string            1.08                    pl526_3    bioconda
perl-io-stringy           2.111                   pl526_1    bioconda
perl-io-tty               1.12                    pl526_1    bioconda
perl-io-zlib              1.10                    pl526_2    bioconda
perl-ipc-run              20180523.0              pl526_0    bioconda
perl-ipc-sharelite        0.17            pl526h6bb024c_1    bioconda
perl-jcode                2.07                    pl526_2    bioconda
perl-json                 4.02                    pl526_0    bioconda
perl-json-xs              2.34            pl526h6bb024c_3    bioconda
perl-lib                  0.63                    pl526_1    bioconda
perl-libwww-perl          6.39                    pl526_0    bioconda
perl-libxml-perl          0.08                    pl526_2    bioconda
perl-list-moreutils       0.428                   pl526_1    bioconda
perl-list-moreutils-xs    0.428                   pl526_0    bioconda
perl-lwp-mediatypes       6.04                    pl526_0    bioconda
perl-lwp-protocol-https   6.07                    pl526_4    bioconda
perl-lwp-simple           6.15            pl526h470a237_4    bioconda
perl-mailtools            2.21                    pl526_0    bioconda
perl-math-cdf             0.1             pl526h14c3975_5    bioconda
perl-math-derivative      1.01                    pl526_0    bioconda
perl-math-random          0.72            pl526h14c3975_2    bioconda
perl-math-spline          0.02                    pl526_2    bioconda
perl-mime-base64          3.15                    pl526_1    bioconda
perl-mime-lite            3.030                   pl526_1    bioconda
perl-mime-tools           5.508                   pl526_1    bioconda
perl-mime-types           2.17                    pl526_0    bioconda
perl-mldbm                2.05                    pl526_1    bioconda
perl-module-implementation 0.09                    pl526_2    bioconda
perl-module-runtime       0.016                   pl526_1    bioconda
perl-module-runtime-conflicts 0.003                   pl526_0    bioconda
perl-moo                  2.003004                pl526_0    bioconda
perl-moose                2.2011          pl526hf484d3e_1    bioconda
perl-mozilla-ca           20180117                pl526_1    bioconda
perl-mro-compat           0.13                    pl526_0    bioconda
perl-net-http             6.19                    pl526_0    bioconda
perl-net-ssleay           1.88            pl526h90d6eec_0    bioconda
perl-ntlm                 1.09                    pl526_4    bioconda
perl-ole-storage_lite     0.19                    pl526_3    bioconda
perl-package-deprecationmanager 0.17                    pl526_0    bioconda
perl-package-stash        0.38            pl526hf484d3e_1    bioconda
perl-package-stash-xs     0.28            pl526hf484d3e_1    bioconda
perl-params-util          1.07            pl526h6bb024c_4    bioconda
perl-parent               0.236                   pl526_1    bioconda
perl-parse-recdescent     1.967015                pl526_0    bioconda
perl-pathtools            3.75            pl526h14c3975_1    bioconda
perl-pdf-api2             2.035                   pl526_0    bioconda
perl-pod-escapes          1.07                    pl526_1    bioconda
perl-pod-usage            1.69                    pl526_1    bioconda
perl-postscript           0.06                    pl526_2    bioconda
perl-role-tiny            2.000008                pl526_0    bioconda
perl-scalar-list-utils    1.52            pl526h516909a_0    bioconda
perl-set-scalar           1.29                    pl526_2    bioconda
perl-soap-lite            1.19                    pl526_1    bioconda
perl-socket               2.027                   pl526_1    bioconda
perl-sort-naturally       1.03                    pl526_2    bioconda
perl-spreadsheet-parseexcel 0.65                    pl526_2    bioconda
perl-spreadsheet-writeexcel 2.40                    pl526_2    bioconda
perl-statistics-descriptive 3.0702                  pl526_0    bioconda
perl-storable             3.15            pl526h14c3975_0    bioconda
perl-sub-exporter         0.987                   pl526_2    bioconda
perl-sub-exporter-progressive 0.001013                pl526_0    bioconda
perl-sub-identify         0.14            pl526h14c3975_0    bioconda
perl-sub-install          0.928                   pl526_2    bioconda
perl-sub-name             0.21                    pl526_1    bioconda
perl-sub-quote            2.006003                pl526_1    bioconda
perl-sub-uplevel          0.2800          pl526h14c3975_2    bioconda
perl-svg                  2.84                    pl526_0    bioconda
perl-svg-graph            0.02                    pl526_3    bioconda
perl-task-weaken          1.06                    pl526_0    bioconda
perl-template-toolkit     2.26                    pl526_1    bioconda
perl-test                 1.26                    pl526_1    bioconda
perl-test-deep            1.128                   pl526_1    bioconda
perl-test-differences     0.67                    pl526_0    bioconda
perl-test-exception       0.43                    pl526_2    bioconda
perl-test-harness         3.42                    pl526_0    bioconda
perl-test-leaktrace       0.16            pl526h14c3975_2    bioconda
perl-test-most            0.35                    pl526_0    bioconda
perl-test-requiresinternet 0.05                    pl526_0    bioconda
perl-test-warn            0.36                    pl526_1    bioconda
perl-text-diff            1.45                    pl526_0    bioconda
perl-tie-ixhash           1.23                    pl526_2    bioconda
perl-time-hires           1.9760          pl526h14c3975_1    bioconda
perl-time-local           1.28                    pl526_1    bioconda
perl-timedate             2.30                    pl526_1    bioconda
perl-tree-dag_node        1.31                    pl526_0    bioconda
perl-try-tiny             0.30                    pl526_1    bioconda
perl-type-tiny            1.004004                pl526_0    bioconda
perl-types-serialiser     1.0                     pl526_2    bioconda
perl-unicode-map          0.112           pl526h6bb024c_3    bioconda
perl-uri                  1.76                    pl526_0    bioconda
perl-www-robotrules       6.02                    pl526_3    bioconda
perl-xml-dom              1.46                    pl526_0    bioconda
perl-xml-dom-xpath        0.14                    pl526_1    bioconda
perl-xml-filter-buffertext 1.01                    pl526_2    bioconda
perl-xml-libxml           2.0132          pl526h7ec2d77_1    bioconda
perl-xml-libxslt          1.94                    pl526_1    bioconda
perl-xml-namespacesupport 1.12                    pl526_0    bioconda
perl-xml-parser           2.44_01         pl526ha1d75be_1002    conda-forge
perl-xml-regexp           0.04                    pl526_2    bioconda
perl-xml-sax              1.02                    pl526_0    bioconda
perl-xml-sax-base         1.09                    pl526_0    bioconda
perl-xml-sax-expat        0.51                    pl526_3    bioconda
perl-xml-sax-writer       0.57                    pl526_0    bioconda
perl-xml-simple           2.25                    pl526_1    bioconda
perl-xml-twig             3.52                    pl526_2    bioconda
perl-xml-writer           0.625                   pl526_2    bioconda
perl-xml-xpath            1.44                    pl526_0    bioconda
perl-xml-xpathengine      0.14                    pl526_2    bioconda
perl-xsloader             0.24                    pl526_0    bioconda
perl-yaml                 1.29                    pl526_0    bioconda
pip                       21.0.1             pyhd8ed1ab_0    conda-forge
pixman                    0.40.0               h36c2ea0_0    conda-forge
prodigal                  2.6.3                h516909a_2    bioconda
prokka                    1.14.6                  pl526_0    bioconda
pthread-stubs             0.4               h36c2ea0_1001    conda-forge
python                    3.7.10          hffdb5ce_100_cpython    conda-forge
python_abi                3.7                     1_cp37m    conda-forge
readline                  8.0                  he28a2e2_2    conda-forge
setuptools                49.6.0           py37h89c1867_3    conda-forge
sqlite                    3.34.0               h74cdb3f_0    conda-forge
t_coffee                  11.0.8           py37hea885bf_8    bioconda
tbl2asn-forever           25.7.2f              h516909a_0    bioconda
tidyp                     1.04                 h516909a_2    bioconda
tk                        8.6.10               h21135ba_1    conda-forge
wheel                     0.36.2             pyhd3deb0d_0    conda-forge
xorg-fixesproto           5.0               h14c3975_1002    conda-forge
xorg-inputproto           2.3.2             h7f98852_1002    conda-forge
xorg-kbproto              1.0.7             h7f98852_1002    conda-forge
xorg-libice               1.0.10               h516909a_0    conda-forge
xorg-libsm                1.2.3             h84519dc_1000    conda-forge
xorg-libx11               1.6.12               h516909a_0    conda-forge
xorg-libxau               1.0.9                h7f98852_0    conda-forge
xorg-libxdmcp             1.1.3                h7f98852_0    conda-forge
xorg-libxext              1.3.4                h516909a_0    conda-forge
xorg-libxfixes            5.0.3             h516909a_1004    conda-forge
xorg-libxi                1.7.10               h516909a_0    conda-forge
xorg-libxpm               3.5.13               h516909a_0    conda-forge
xorg-libxrender           0.9.10            h516909a_1002    conda-forge
xorg-libxt                1.1.5             h516909a_1003    conda-forge
xorg-libxtst              1.2.3             h516909a_1002    conda-forge
xorg-recordproto          1.14.2            h516909a_1002    conda-forge
xorg-renderproto          0.11.1            h14c3975_1002    conda-forge
xorg-xextproto            7.3.0             h7f98852_1002    conda-forge
xorg-xproto               7.0.31            h7f98852_1007    conda-forge
xz                        5.2.5                h516909a_1    conda-forge
zlib                      1.2.11            h516909a_1010    conda-forge
zstd                      1.4.8                ha95c52a_1    conda-forge
natefoo commented 2 years ago

Can you grep your conda-meta/*.json to see which one (if any) provides hmmer3.pm?

bgruening commented 2 years ago 
(__prokka@1.14.6) galaxy@sn06:/usr/local/tools/_conda/envs/__prokka@1.14.6$ grep hmmer3.pm conda-meta/*.json
conda-meta/perl-bioperl-core-1.007002-pl526_2.json:    "lib/site_perl/5.26.2/Bio/SearchIO/hmmer3.pm",
conda-meta/perl-bioperl-core-1.007002-pl526_2.json:        "_path": "lib/site_perl/5.26.2/Bio/SearchIO/hmmer3.pm",
bgruening commented 2 years ago

which bioperl version do you have?

natefoo commented 2 years ago 
Singularity> pwd
/usr/local/conda-meta
Singularity> ls -l *bioperl*
-rw-r--r--    1 root     root          1333 Feb 12 00:07 perl-bioperl-1.7.8-hdfd78af_0.json
-rw-r--r--    1 root     root        389876 Feb 12 00:07 perl-bioperl-core-1.7.8-pl5321h9ee0642_0.json
-rw-r--r--    1 root     root         95519 Feb 12 00:07 perl-bioperl-run-1.007002-pl5321hdfd78af_6.json
Singularity> grep hmmer3 perl-bioperl-core-1.7.8-pl5321h9ee0642_0.json
Singularity>
bgruening commented 2 years ago

So my older bioperl has it? Oo

bgruening commented 2 years ago 
perl-bioperl              1.7.2                  pl526_11    bioconda
perl-bioperl-core         1.007002                pl526_2    bioconda
perl-bioperl-run          1.007002                pl526_4    bioconda
natefoo commented 2 years ago

Yep, appears to be the case.

bgruening commented 2 years ago

maybe? https://github.com/bioconda/bioconda-recipes/pull/33223

natefoo commented 2 years ago

The image rebuild failed but we have found it works with the older image, prokka:1.14.6--pl5262hdfd78af_1. We have removed the newer image from quay.io and the Singularity depot/CVMFS repo and this should be fixed now. Reruns worked here: https://usegalaxy.org/u/nate/h/imported-jen-test-prokka-1146galaxy1

Thanks for your help @bgruening!

jennaj commented 2 years ago

Resolved, closing