Merge pull request #229 from singularityhub/update/containers-2024-05-13

[bot] update/containers-2024-05-13

quay.io/biocontainers/allo/container.yaml

@@ -0,0 +1,35 @@
+url: https://biocontainers.pro/tools/allo
+maintainer: '@vsoch'
+description: singularity registry hpc automated addition for allo
+latest:
+  1.1.1--pyhdfd78af_1: sha256:33427e6f77e008d925f7995e53dd7761f5887b03092b2e9d83589ae5a030e2a2
+tags:
+  1.1.1--pyhdfd78af_1: sha256:33427e6f77e008d925f7995e53dd7761f5887b03092b2e9d83589ae5a030e2a2
+docker: quay.io/biocontainers/allo
+aliases:
+  allo: /usr/local/bin/allo
+  flatc: /usr/local/bin/flatc
+  protoc-24.4.0: /usr/local/bin/protoc-24.4.0
+  h5tools_test_utils: /usr/local/bin/h5tools_test_utils
+  import_pb_to_tensorboard: /usr/local/bin/import_pb_to_tensorboard
+  h5fuse.sh: /usr/local/bin/h5fuse.sh
+  estimator_ckpt_converter: /usr/local/bin/estimator_ckpt_converter
+  google-oauthlib-tool: /usr/local/bin/google-oauthlib-tool
+  tf_upgrade_v2: /usr/local/bin/tf_upgrade_v2
+  h5delete: /usr/local/bin/h5delete
+  tflite_convert: /usr/local/bin/tflite_convert
+  saved_model_cli: /usr/local/bin/saved_model_cli
+  toco: /usr/local/bin/toco
+  toco_from_protos: /usr/local/bin/toco_from_protos
+  tensorboard: /usr/local/bin/tensorboard
+  markdown_py: /usr/local/bin/markdown_py
+  grpc_cpp_plugin: /usr/local/bin/grpc_cpp_plugin
+  grpc_csharp_plugin: /usr/local/bin/grpc_csharp_plugin
+  grpc_node_plugin: /usr/local/bin/grpc_node_plugin
+  grpc_objective_c_plugin: /usr/local/bin/grpc_objective_c_plugin
+  grpc_php_plugin: /usr/local/bin/grpc_php_plugin
+  grpc_python_plugin: /usr/local/bin/grpc_python_plugin
+  grpc_ruby_plugin: /usr/local/bin/grpc_ruby_plugin
+  pyrsa-decrypt: /usr/local/bin/pyrsa-decrypt
+  pyrsa-encrypt: /usr/local/bin/pyrsa-encrypt
+  pyrsa-keygen: /usr/local/bin/pyrsa-keygen

quay.io/biocontainers/dechat/container.yaml

@@ -0,0 +1,32 @@
+url: https://biocontainers.pro/tools/dechat
+maintainer: '@vsoch'
+description: singularity registry hpc automated addition for dechat
+latest:
+  1.0.0--h500492e_0: sha256:2d9a00d874b942a03def943e5936567ca5d6d69efc258b7a066d4e5961a930e0
+tags:
+  1.0.0--h500492e_0: sha256:2d9a00d874b942a03def943e5936567ca5d6d69efc258b7a066d4e5961a930e0
+docker: quay.io/biocontainers/dechat
+aliases:
+  dechat: /usr/local/bin/dechat
+  h5clear: /usr/local/bin/h5clear
+  h5format_convert: /usr/local/bin/h5format_convert
+  h5watch: /usr/local/bin/h5watch
+  h5fc: /usr/local/bin/h5fc
+  gif2h5: /usr/local/bin/gif2h5
+  h52gif: /usr/local/bin/h52gif
+  h5c++: /usr/local/bin/h5c++
+  h5copy: /usr/local/bin/h5copy
+  h5debug: /usr/local/bin/h5debug
+  h5diff: /usr/local/bin/h5diff
+  h5import: /usr/local/bin/h5import
+  h5jam: /usr/local/bin/h5jam
+  h5ls: /usr/local/bin/h5ls
+  h5mkgrp: /usr/local/bin/h5mkgrp
+  h5perf_serial: /usr/local/bin/h5perf_serial
+  h5redeploy: /usr/local/bin/h5redeploy
+  h5repack: /usr/local/bin/h5repack
+  h5repart: /usr/local/bin/h5repart
+  h5stat: /usr/local/bin/h5stat
+  h5unjam: /usr/local/bin/h5unjam
+  h5dump: /usr/local/bin/h5dump
+  h5cc: /usr/local/bin/h5cc

quay.io/biocontainers/liqa/container.yaml

@@ -0,0 +1,38 @@
+url: https://biocontainers.pro/tools/liqa
+maintainer: '@vsoch'
+description: singularity registry hpc automated addition for liqa
+latest:
+  1.3.4--pyhdfd78af_0: sha256:d55808f94c1e10131611cb41d72b1c2a0a30fa2c6aa8f981e6c5a80f22404145
+tags:
+  1.3.4--pyhdfd78af_0: sha256:d55808f94c1e10131611cb41d72b1c2a0a30fa2c6aa8f981e6c5a80f22404145
+docker: quay.io/biocontainers/liqa
+aliases:
+  PreProcess.pl: /usr/local/bin/PreProcess.pl
+  PreProcess_gtf.pl: /usr/local/bin/PreProcess_gtf.pl
+  group_process.pl: /usr/local/bin/group_process.pl
+  liqa: /usr/local/bin/liqa
+  liqa.py: /usr/local/bin/liqa.py
+  noveliso.py: /usr/local/bin/noveliso.py
+  testDAS.R: /usr/local/bin/testDAS.R
+  futurize: /usr/local/bin/futurize
+  pasteurize: /usr/local/bin/pasteurize
+  hb-info: /usr/local/bin/hb-info
+  tjbench: /usr/local/bin/tjbench
+  fonttools: /usr/local/bin/fonttools
+  pyftmerge: /usr/local/bin/pyftmerge
+  pyftsubset: /usr/local/bin/pyftsubset
+  ttx: /usr/local/bin/ttx
+  brotli: /usr/local/bin/brotli
+  opj_compress: /usr/local/bin/opj_compress
+  opj_decompress: /usr/local/bin/opj_decompress
+  opj_dump: /usr/local/bin/opj_dump
+  2to3-3.10: /usr/local/bin/2to3-3.10
+  idle3.10: /usr/local/bin/idle3.10
+  pydoc3.10: /usr/local/bin/pydoc3.10
+  python3.10: /usr/local/bin/python3.10
+  python3.10-config: /usr/local/bin/python3.10-config
+  jpgicc: /usr/local/bin/jpgicc
+  linkicc: /usr/local/bin/linkicc
+  psicc: /usr/local/bin/psicc
+  tificc: /usr/local/bin/tificc
+  transicc: /usr/local/bin/transicc

quay.io/biocontainers/pstrain/container.yaml

@@ -0,0 +1,83 @@
+url: https://biocontainers.pro/tools/pstrain
+maintainer: '@vsoch'
+description: singularity registry hpc automated addition for pstrain
+latest:
+  1.0.3--h9ee0642_0: sha256:abf2b54cf286247dab72e52f881c8da3d1d17a6c92ae457218778219e9237eb3
+tags:
+  1.0.3--h9ee0642_0: sha256:abf2b54cf286247dab72e52f881c8da3d1d17a6c92ae457218778219e9237eb3
+docker: quay.io/biocontainers/pstrain
+aliases:
+  GenomeAnalysisTK.jar: /usr/local/bin/GenomeAnalysisTK.jar
+  PStrain.py: /usr/local/bin/PStrain.py
+  PStrain_m2.py: /usr/local/bin/PStrain_m2.py
+  add_metadata_tree.py: /usr/local/bin/add_metadata_tree.py
+  breadth_depth.py: /usr/local/bin/breadth_depth.py
+  collect_metaphlan_datbase.sh: /usr/local/bin/collect_metaphlan_datbase.sh
+  consensus.py: /usr/local/bin/consensus.py
+  consensus_aDNA.py: /usr/local/bin/consensus_aDNA.py
+  extract_markers.py: /usr/local/bin/extract_markers.py
+  iteration.py: /usr/local/bin/iteration.py
+  merge.py: /usr/local/bin/merge.py
+  merge_metaphlan_tables.py: /usr/local/bin/merge_metaphlan_tables.py
+  metaphlan: /usr/local/bin/metaphlan
+  my_imports.py: /usr/local/bin/my_imports.py
+  phylophlan: /usr/local/bin/phylophlan
+  phylophlan_assign_sgbs: /usr/local/bin/phylophlan_assign_sgbs
+  phylophlan_draw_metagenomic: /usr/local/bin/phylophlan_draw_metagenomic
+  phylophlan_get_reference: /usr/local/bin/phylophlan_get_reference
+  phylophlan_setup_database: /usr/local/bin/phylophlan_setup_database
+  phylophlan_strain_finder: /usr/local/bin/phylophlan_strain_finder
+  phylophlan_write_config_file: /usr/local/bin/phylophlan_write_config_file
+  phylophlan_write_default_configs.sh: /usr/local/bin/phylophlan_write_default_configs.sh
+  picard.jar: /usr/local/bin/picard.jar
+  pipeline.py: /usr/local/bin/pipeline.py
+  pipeline_V30.py: /usr/local/bin/pipeline_V30.py
+  plot_tree_graphlan.py: /usr/local/bin/plot_tree_graphlan.py
+  poly.py: /usr/local/bin/poly.py
+  polymut.py: /usr/local/bin/polymut.py
+  pstrain: /usr/local/bin/pstrain
+  pstrain_index_metaphlan3.sh: /usr/local/bin/pstrain_index_metaphlan3.sh
+  psudo.py: /usr/local/bin/psudo.py
+  read_fastx.py: /usr/local/bin/read_fastx.py
+  reads_info.py: /usr/local/bin/reads_info.py
+  rst2html: /usr/local/bin/rst2html
+  rst2html4: /usr/local/bin/rst2html4
+  rst2html5: /usr/local/bin/rst2html5
+  rst2latex: /usr/local/bin/rst2latex
+  rst2man: /usr/local/bin/rst2man
+  rst2odt: /usr/local/bin/rst2odt
+  rst2pseudoxml: /usr/local/bin/rst2pseudoxml
+  rst2s5: /usr/local/bin/rst2s5
+  rst2xetex: /usr/local/bin/rst2xetex
+  rst2xml: /usr/local/bin/rst2xml
+  sample2markers.py: /usr/local/bin/sample2markers.py
+  sgb_to_gtdb_profile.py: /usr/local/bin/sgb_to_gtdb_profile.py
+  single_merge.py: /usr/local/bin/single_merge.py
+  single_species.py: /usr/local/bin/single_species.py
+  strain_transmission.py: /usr/local/bin/strain_transmission.py
+  strainphlan: /usr/local/bin/strainphlan
+  archive-ncbinlp: /usr/local/bin/archive-ncbinlp
+  archive-nihocc: /usr/local/bin/archive-nihocc
+  archive-nmcds: /usr/local/bin/archive-nmcds
+  archive-pmc: /usr/local/bin/archive-pmc
+  archive-taxonomy: /usr/local/bin/archive-taxonomy
+  args2slice: /usr/local/bin/args2slice
+  asn2ref: /usr/local/bin/asn2ref
+  blst2gm: /usr/local/bin/blst2gm
+  cit2pmid: /usr/local/bin/cit2pmid
+  combine-uid-lists: /usr/local/bin/combine-uid-lists
+  difference-uid-lists: /usr/local/bin/difference-uid-lists
+  download-pmc: /usr/local/bin/download-pmc
+  ds2pme: /usr/local/bin/ds2pme
+  fetch-local: /usr/local/bin/fetch-local
+  fetch-nmcds: /usr/local/bin/fetch-nmcds
+  fetch-pmc: /usr/local/bin/fetch-pmc
+  fetch-taxonomy: /usr/local/bin/fetch-taxonomy
+  filter-genbank: /usr/local/bin/filter-genbank
+  filter-record: /usr/local/bin/filter-record
+  gbf2fsa: /usr/local/bin/gbf2fsa
+  gbf2ref: /usr/local/bin/gbf2ref
+  gm2ranges: /usr/local/bin/gm2ranges
+  gm2segs: /usr/local/bin/gm2segs
+  ini2xml: /usr/local/bin/ini2xml
+  jsonl2xml: /usr/local/bin/jsonl2xml

quay.io/biocontainers/vclean/container.yaml

@@ -0,0 +1,36 @@
+url: https://biocontainers.pro/tools/vclean
+maintainer: '@vsoch'
+description: singularity registry hpc automated addition for vclean
+latest:
+  0.0.2--pyhdfd78af_0: sha256:8d716fc6b2981f3798e1f201e35860e3e2cbf9a6e62120ff89f0bb4f7148ba6f
+tags:
+  0.0.2--pyhdfd78af_0: sha256:8d716fc6b2981f3798e1f201e35860e3e2cbf9a6e62120ff89f0bb4f7148ba6f
+docker: quay.io/biocontainers/vclean
+aliases:
+  checkv: /usr/local/bin/checkv
+  vclean: /usr/local/bin/vclean
+  archive-ncbinlp: /usr/local/bin/archive-ncbinlp
+  archive-nihocc: /usr/local/bin/archive-nihocc
+  archive-nmcds: /usr/local/bin/archive-nmcds
+  archive-pmc: /usr/local/bin/archive-pmc
+  archive-taxonomy: /usr/local/bin/archive-taxonomy
+  args2slice: /usr/local/bin/args2slice
+  asn2ref: /usr/local/bin/asn2ref
+  blst2gm: /usr/local/bin/blst2gm
+  cit2pmid: /usr/local/bin/cit2pmid
+  combine-uid-lists: /usr/local/bin/combine-uid-lists
+  difference-uid-lists: /usr/local/bin/difference-uid-lists
+  download-pmc: /usr/local/bin/download-pmc
+  ds2pme: /usr/local/bin/ds2pme
+  fetch-local: /usr/local/bin/fetch-local
+  fetch-nmcds: /usr/local/bin/fetch-nmcds
+  fetch-pmc: /usr/local/bin/fetch-pmc
+  fetch-taxonomy: /usr/local/bin/fetch-taxonomy
+  filter-genbank: /usr/local/bin/filter-genbank
+  filter-record: /usr/local/bin/filter-record
+  gbf2fsa: /usr/local/bin/gbf2fsa
+  gbf2ref: /usr/local/bin/gbf2ref
+  gm2ranges: /usr/local/bin/gm2ranges
+  gm2segs: /usr/local/bin/gm2segs
+  ini2xml: /usr/local/bin/ini2xml
+  jsonl2xml: /usr/local/bin/jsonl2xml

quay.io/biocontainers/vcontact3/container.yaml

@@ -0,0 +1,90 @@
+url: https://biocontainers.pro/tools/vcontact3
+maintainer: '@vsoch'
+description: singularity registry hpc automated addition for vcontact3
+latest:
+  3.0.0.b38--pyhdfd78af_0: sha256:3c6dc1cdefaa8f50e0073792606cb41c30fa6d22a7fb7a0d8227a1a4f61f0f8c
+tags:
+  3.0.0.b38--pyhdfd78af_0: sha256:3c6dc1cdefaa8f50e0073792606cb41c30fa6d22a7fb7a0d8227a1a4f61f0f8c
+docker: quay.io/biocontainers/vcontact3
+aliases:
+  archspec: /usr/local/bin/archspec
+  genl-ctrl-list: /usr/local/bin/genl-ctrl-list
+  get_gprof: /usr/local/bin/get_gprof
+  gi-compile-repository: /usr/local/bin/gi-compile-repository
+  gi-decompile-typelib: /usr/local/bin/gi-decompile-typelib
+  gi-inspect-typelib: /usr/local/bin/gi-inspect-typelib
+  idiag-socket-details: /usr/local/bin/idiag-socket-details
+  nf-ct-add: /usr/local/bin/nf-ct-add
+  nf-ct-events: /usr/local/bin/nf-ct-events
+  nf-ct-list: /usr/local/bin/nf-ct-list
+  nf-exp-add: /usr/local/bin/nf-exp-add
+  nf-exp-delete: /usr/local/bin/nf-exp-delete
+  nf-exp-list: /usr/local/bin/nf-exp-list
+  nf-log: /usr/local/bin/nf-log
+  nf-monitor: /usr/local/bin/nf-monitor
+  nf-queue: /usr/local/bin/nf-queue
+  nl-addr-add: /usr/local/bin/nl-addr-add
+  nl-addr-delete: /usr/local/bin/nl-addr-delete
+  nl-addr-list: /usr/local/bin/nl-addr-list
+  nl-class-add: /usr/local/bin/nl-class-add
+  nl-class-delete: /usr/local/bin/nl-class-delete
+  nl-class-list: /usr/local/bin/nl-class-list
+  nl-classid-lookup: /usr/local/bin/nl-classid-lookup
+  nl-cls-add: /usr/local/bin/nl-cls-add
+  nl-cls-delete: /usr/local/bin/nl-cls-delete
+  nl-cls-list: /usr/local/bin/nl-cls-list
+  nl-fib-lookup: /usr/local/bin/nl-fib-lookup
+  nl-link-enslave: /usr/local/bin/nl-link-enslave
+  nl-link-ifindex2name: /usr/local/bin/nl-link-ifindex2name
+  nl-link-list: /usr/local/bin/nl-link-list
+  nl-link-name2ifindex: /usr/local/bin/nl-link-name2ifindex
+  nl-link-release: /usr/local/bin/nl-link-release
+  nl-link-set: /usr/local/bin/nl-link-set
+  nl-link-stats: /usr/local/bin/nl-link-stats
+  nl-list-caches: /usr/local/bin/nl-list-caches
+  nl-list-sockets: /usr/local/bin/nl-list-sockets
+  nl-monitor: /usr/local/bin/nl-monitor
+  nl-neigh-add: /usr/local/bin/nl-neigh-add
+  nl-neigh-delete: /usr/local/bin/nl-neigh-delete
+  nl-neigh-list: /usr/local/bin/nl-neigh-list
+  nl-neightbl-list: /usr/local/bin/nl-neightbl-list
+  nl-nh-list: /usr/local/bin/nl-nh-list
+  nl-pktloc-lookup: /usr/local/bin/nl-pktloc-lookup
+  nl-qdisc-add: /usr/local/bin/nl-qdisc-add
+  nl-qdisc-delete: /usr/local/bin/nl-qdisc-delete
+  nl-qdisc-list: /usr/local/bin/nl-qdisc-list
+  nl-route-add: /usr/local/bin/nl-route-add
+  nl-route-delete: /usr/local/bin/nl-route-delete
+  nl-route-get: /usr/local/bin/nl-route-get
+  nl-route-list: /usr/local/bin/nl-route-list
+  nl-rule-list: /usr/local/bin/nl-rule-list
+  nl-tctree-list: /usr/local/bin/nl-tctree-list
+  nl-util-addr: /usr/local/bin/nl-util-addr
+  protoc-25.3.0: /usr/local/bin/protoc-25.3.0
+  pyrodigal-gv: /usr/local/bin/pyrodigal-gv
+  vcontact3: /usr/local/bin/vcontact3
+  gawk-5.3.0: /usr/local/bin/gawk-5.3.0
+  pyrodigal: /usr/local/bin/pyrodigal
+  cpuinfo: /usr/local/bin/cpuinfo
+  gawkbug: /usr/local/bin/gawkbug
+  dask: /usr/local/bin/dask
+  aria2c: /usr/local/bin/aria2c
+  cmtime: /usr/local/bin/cmtime
+  ib_acme: /usr/local/bin/ib_acme
+  ibv_asyncwatch: /usr/local/bin/ibv_asyncwatch
+  ibv_devices: /usr/local/bin/ibv_devices
+  ibv_devinfo: /usr/local/bin/ibv_devinfo
+  ibv_rc_pingpong: /usr/local/bin/ibv_rc_pingpong
+  ibv_srq_pingpong: /usr/local/bin/ibv_srq_pingpong
+  ibv_uc_pingpong: /usr/local/bin/ibv_uc_pingpong
+  ibv_ud_pingpong: /usr/local/bin/ibv_ud_pingpong
+  ibv_xsrq_pingpong: /usr/local/bin/ibv_xsrq_pingpong
+  mckey: /usr/local/bin/mckey
+  rcopy: /usr/local/bin/rcopy
+  rdma_client: /usr/local/bin/rdma_client
+  rdma_server: /usr/local/bin/rdma_server
+  rdma_xclient: /usr/local/bin/rdma_xclient
+  rdma_xserver: /usr/local/bin/rdma_xserver
+  riostream: /usr/local/bin/riostream
+  rping: /usr/local/bin/rping
+  rstream: /usr/local/bin/rstream