From d6ae92e2bb41f85fcc1f14ebef6dd2017b67adb2 Mon Sep 17 00:00:00 2001
From: github-actions <github-actions@users.noreply.github.com>
Date: Sat, 18 Jul 2026 05:02:16 +0000
Subject: [PATCH] Automated deployment to update containers 2026-07-18

---
 quay.io/biocontainers/beave/container.yaml    | 17 ++++
 quay.io/biocontainers/isovar/container.yaml   | 54 +++++++++++
 quay.io/biocontainers/jorg/container.yaml     | 43 +++++++++
 quay.io/biocontainers/mhctools/container.yaml | 69 ++++++++++++++
 .../biocontainers/shellinford/container.yaml  | 16 ++++
 quay.io/biocontainers/unmux/container.yaml    | 12 +++
 quay.io/biocontainers/vaxrank/container.yaml  | 90 +++++++++++++++++++
 7 files changed, 301 insertions(+)
 create mode 100644 quay.io/biocontainers/beave/container.yaml
 create mode 100644 quay.io/biocontainers/isovar/container.yaml
 create mode 100644 quay.io/biocontainers/jorg/container.yaml
 create mode 100644 quay.io/biocontainers/mhctools/container.yaml
 create mode 100644 quay.io/biocontainers/shellinford/container.yaml
 create mode 100644 quay.io/biocontainers/unmux/container.yaml
 create mode 100644 quay.io/biocontainers/vaxrank/container.yaml

diff --git a/quay.io/biocontainers/beave/container.yaml b/quay.io/biocontainers/beave/container.yaml
new file mode 100644
index 0000000000000..f3cc1378ab9e5
--- /dev/null
+++ b/quay.io/biocontainers/beave/container.yaml
@@ -0,0 +1,17 @@
+url: https://biocontainers.pro/tools/beave
+maintainer: '@vsoch'
+description: singularity registry hpc automated addition for beave
+latest:
+  1.0.0--py314h2362204_0: 
+    sha256:5774bbcc80f98af0cb35901e9a4a4ae5db92c579d65433e5492d64f13b1b1481
+tags:
+  1.0.0--py314h2362204_0: 
+    sha256:5774bbcc80f98af0cb35901e9a4a4ae5db92c579d65433e5492d64f13b1b1481
+docker: quay.io/biocontainers/beave
+aliases:
+  beave: /usr/local/bin/beave
+  idle3.14: /usr/local/bin/idle3.14
+  pydoc3.14: /usr/local/bin/pydoc3.14
+  python3.14: /usr/local/bin/python3.14
+  python3.14-config: /usr/local/bin/python3.14-config
+  numpy-config: /usr/local/bin/numpy-config
diff --git a/quay.io/biocontainers/isovar/container.yaml b/quay.io/biocontainers/isovar/container.yaml
new file mode 100644
index 0000000000000..32f527b59e90c
--- /dev/null
+++ b/quay.io/biocontainers/isovar/container.yaml
@@ -0,0 +1,54 @@
+url: https://biocontainers.pro/tools/isovar
+maintainer: '@vsoch'
+description: singularity registry hpc automated addition for isovar
+latest:
+  1.7.1--pyh106432d_0: 
+    sha256:5194195d39a6d46a21d221bc18510db42d5fc622c05d1993df8e3fab36ca0a9b
+tags:
+  1.7.1--pyh106432d_0: 
+    sha256:5194195d39a6d46a21d221bc18510db42d5fc622c05d1993df8e3fab36ca0a9b
+docker: quay.io/biocontainers/isovar
+aliases:
+  isovar: /usr/local/bin/isovar
+  isovar-allele-counts: /usr/local/bin/isovar-allele-counts
+  isovar-allele-reads: /usr/local/bin/isovar-allele-reads
+  isovar-protein-sequences: /usr/local/bin/isovar-protein-sequences
+  isovar-reference-contexts: /usr/local/bin/isovar-reference-contexts
+  isovar-translations: /usr/local/bin/isovar-translations
+  isovar-variant-reads: /usr/local/bin/isovar-variant-reads
+  isovar-variant-sequences: /usr/local/bin/isovar-variant-sequences
+  protoc-35.1.0: /usr/local/bin/protoc-35.1.0
+  protoc-gen-upb-35.1.0: /usr/local/bin/protoc-gen-upb-35.1.0
+  protoc-gen-upb_minitable-35.1.0: 
+    /usr/local/bin/protoc-gen-upb_minitable-35.1.0
+  protoc-gen-upbdefs-35.1.0: /usr/local/bin/protoc-gen-upbdefs-35.1.0
+  psl: /usr/local/bin/psl
+  psl-make-dafsa: /usr/local/bin/psl-make-dafsa
+  pylint-config: /usr/local/bin/pylint-config
+  varcode: /usr/local/bin/varcode
+  varcode-genes: /usr/local/bin/varcode-genes
+  pyensembl: /usr/local/bin/pyensembl
+  isort-identify-imports: /usr/local/bin/isort-identify-imports
+  pylint: /usr/local/bin/pylint
+  pyreverse: /usr/local/bin/pyreverse
+  symilar: /usr/local/bin/symilar
+  isort: /usr/local/bin/isort
+  idna: /usr/local/bin/idna
+  get_gprof: /usr/local/bin/get_gprof
+  protoc-gen-upb_minitable: /usr/local/bin/protoc-gen-upb_minitable
+  h2benchmark: /usr/local/bin/h2benchmark
+  elastishadow: /usr/local/bin/elastishadow
+  get_objgraph: /usr/local/bin/get_objgraph
+  undill: /usr/local/bin/undill
+  checksum-profile: /usr/local/bin/checksum-profile
+  protoc-gen-upb: /usr/local/bin/protoc-gen-upb
+  protoc-gen-upbdefs: /usr/local/bin/protoc-gen-upbdefs
+  vcf_sample_filter.py: /usr/local/bin/vcf_sample_filter.py
+  vcf_filter.py: /usr/local/bin/vcf_filter.py
+  vcf_melt: /usr/local/bin/vcf_melt
+  elastipubsub5: /usr/local/bin/elastipubsub5
+  mqtt5_app: /usr/local/bin/mqtt5_app
+  mqtt5_canary: /usr/local/bin/mqtt5_canary
+  mqtt5canary: /usr/local/bin/mqtt5canary
+  elasticurl_cpp: /usr/local/bin/elasticurl_cpp
+  elastipubsub: /usr/local/bin/elastipubsub
diff --git a/quay.io/biocontainers/jorg/container.yaml b/quay.io/biocontainers/jorg/container.yaml
new file mode 100644
index 0000000000000..4d4adaf0be4d3
--- /dev/null
+++ b/quay.io/biocontainers/jorg/container.yaml
@@ -0,0 +1,43 @@
+url: https://biocontainers.pro/tools/jorg
+maintainer: '@vsoch'
+description: singularity registry hpc automated addition for jorg
+latest:
+  1.0.2--hdfd78af_0: 
+    sha256:43b1d760fa20d058f09e12e81319dfe28e5bbab36833a79f5a3404aeb121b3c0
+tags:
+  1.0.2--hdfd78af_0: 
+    sha256:43b1d760fa20d058f09e12e81319dfe28e5bbab36833a79f5a3404aeb121b3c0
+docker: quay.io/biocontainers/jorg
+aliases:
+  jorg: /usr/local/bin/jorg
+  mira: /usr/local/bin/mira
+  mira-install-sls-rrna.sh: /usr/local/bin/mira-install-sls-rrna.sh
+  mirabait: /usr/local/bin/mirabait
+  miraconvert: /usr/local/bin/miraconvert
+  miramem: /usr/local/bin/miramem
+  miramer: /usr/local/bin/miramer
+  gawk-5.4.0: /usr/local/bin/gawk-5.4.0
+  bash: /usr/local/bin/bash
+  bashbug: /usr/local/bin/bashbug
+  egrep: /usr/local/bin/egrep
+  fgrep: /usr/local/bin/fgrep
+  grep: /usr/local/bin/grep
+  seqtk: /usr/local/bin/seqtk
+  basenc: /usr/local/bin/basenc
+  b2sum: /usr/local/bin/b2sum
+  ls: /usr/local/bin/ls
+  base32: /usr/local/bin/base32
+  base64: /usr/local/bin/base64
+  basename: /usr/local/bin/basename
+  cat: /usr/local/bin/cat
+  chcon: /usr/local/bin/chcon
+  chgrp: /usr/local/bin/chgrp
+  chmod: /usr/local/bin/chmod
+  chown: /usr/local/bin/chown
+  chroot: /usr/local/bin/chroot
+  cksum: /usr/local/bin/cksum
+  comm: /usr/local/bin/comm
+  cp: /usr/local/bin/cp
+  csplit: /usr/local/bin/csplit
+  cut: /usr/local/bin/cut
+  date: /usr/local/bin/date
diff --git a/quay.io/biocontainers/mhctools/container.yaml b/quay.io/biocontainers/mhctools/container.yaml
new file mode 100644
index 0000000000000..59fe0d238f6cc
--- /dev/null
+++ b/quay.io/biocontainers/mhctools/container.yaml
@@ -0,0 +1,69 @@
+url: https://biocontainers.pro/tools/mhctools
+maintainer: '@vsoch'
+description: singularity registry hpc automated addition for mhctools
+latest:
+  3.31.5--pyh106432d_0: 
+    sha256:017e2f1b37c1f3a19eb3386352a9a3713d3e15c039a70af6085a4fdb828a98b5
+tags:
+  3.31.5--pyh106432d_0: 
+    sha256:017e2f1b37c1f3a19eb3386352a9a3713d3e15c039a70af6085a4fdb828a98b5
+docker: quay.io/biocontainers/mhctools
+aliases:
+  mhcflurry-calibrate-percentile-ranks: 
+    /usr/local/bin/mhcflurry-calibrate-percentile-ranks
+  mhcflurry-class1-select-allele-specific-models: 
+    /usr/local/bin/mhcflurry-class1-select-allele-specific-models
+  mhcflurry-class1-select-pan-allele-models: 
+    /usr/local/bin/mhcflurry-class1-select-pan-allele-models
+  mhcflurry-class1-select-processing-models: 
+    /usr/local/bin/mhcflurry-class1-select-processing-models
+  mhcflurry-class1-train-allele-specific-models: 
+    /usr/local/bin/mhcflurry-class1-train-allele-specific-models
+  mhcflurry-class1-train-pan-allele-models: 
+    /usr/local/bin/mhcflurry-class1-train-pan-allele-models
+  mhcflurry-class1-train-presentation-models: 
+    /usr/local/bin/mhcflurry-class1-train-presentation-models
+  mhcflurry-class1-train-processing-models: 
+    /usr/local/bin/mhcflurry-class1-train-processing-models
+  mhcflurry-cluster-worker-entry-point: 
+    /usr/local/bin/mhcflurry-cluster-worker-entry-point
+  mhcflurry-downloads: /usr/local/bin/mhcflurry-downloads
+  mhcflurry-predict: /usr/local/bin/mhcflurry-predict
+  mhcflurry-predict-scan: /usr/local/bin/mhcflurry-predict-scan
+  mhcgnomes: /usr/local/bin/mhcgnomes
+  mhctools: /usr/local/bin/mhctools
+  protoc-35.1.0: /usr/local/bin/protoc-35.1.0
+  protoc-gen-upb-35.1.0: /usr/local/bin/protoc-gen-upb-35.1.0
+  protoc-gen-upb_minitable-35.1.0: 
+    /usr/local/bin/protoc-gen-upb_minitable-35.1.0
+  protoc-gen-upbdefs-35.1.0: /usr/local/bin/protoc-gen-upbdefs-35.1.0
+  psl: /usr/local/bin/psl
+  psl-make-dafsa: /usr/local/bin/psl-make-dafsa
+  pylint-config: /usr/local/bin/pylint-config
+  varcode: /usr/local/bin/varcode
+  varcode-genes: /usr/local/bin/varcode-genes
+  pyensembl: /usr/local/bin/pyensembl
+  isort-identify-imports: /usr/local/bin/isort-identify-imports
+  pylint: /usr/local/bin/pylint
+  pyreverse: /usr/local/bin/pyreverse
+  symilar: /usr/local/bin/symilar
+  isort: /usr/local/bin/isort
+  idna: /usr/local/bin/idna
+  get_gprof: /usr/local/bin/get_gprof
+  torchfrtrace: /usr/local/bin/torchfrtrace
+  pybind11-config: /usr/local/bin/pybind11-config
+  protoc-gen-upb_minitable: /usr/local/bin/protoc-gen-upb_minitable
+  torch_shm_manager: /usr/local/bin/torch_shm_manager
+  h2benchmark: /usr/local/bin/h2benchmark
+  elastishadow: /usr/local/bin/elastishadow
+  get_objgraph: /usr/local/bin/get_objgraph
+  undill: /usr/local/bin/undill
+  checksum-profile: /usr/local/bin/checksum-profile
+  protoc-gen-upb: /usr/local/bin/protoc-gen-upb
+  protoc-gen-upbdefs: /usr/local/bin/protoc-gen-upbdefs
+  torchrun: /usr/local/bin/torchrun
+  isympy: /usr/local/bin/isympy
+  vcf_sample_filter.py: /usr/local/bin/vcf_sample_filter.py
+  vcf_filter.py: /usr/local/bin/vcf_filter.py
+  vcf_melt: /usr/local/bin/vcf_melt
+  elastipubsub5: /usr/local/bin/elastipubsub5
diff --git a/quay.io/biocontainers/shellinford/container.yaml b/quay.io/biocontainers/shellinford/container.yaml
new file mode 100644
index 0000000000000..d599c9e563493
--- /dev/null
+++ b/quay.io/biocontainers/shellinford/container.yaml
@@ -0,0 +1,16 @@
+url: https://biocontainers.pro/tools/shellinford
+maintainer: '@vsoch'
+description: singularity registry hpc automated addition for shellinford
+latest:
+  0.4.1--py310hd766df8_0: 
+    sha256:56c8a56a3b81bbe969165c1fbc6421b5d062efa3630e87ef88f04d77c13a8987
+tags:
+  0.4.1--py310hd766df8_0: 
+    sha256:56c8a56a3b81bbe969165c1fbc6421b5d062efa3630e87ef88f04d77c13a8987
+docker: quay.io/biocontainers/shellinford
+aliases:
+  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
diff --git a/quay.io/biocontainers/unmux/container.yaml b/quay.io/biocontainers/unmux/container.yaml
new file mode 100644
index 0000000000000..7c04588fd308b
--- /dev/null
+++ b/quay.io/biocontainers/unmux/container.yaml
@@ -0,0 +1,12 @@
+url: https://biocontainers.pro/tools/unmux
+maintainer: '@vsoch'
+description: singularity registry hpc automated addition for unmux
+latest:
+  0.2.0--hec9b1f2_0: 
+    sha256:6e3d7c9a2f50e66e06652abf7074ab8525e5d92bb01c817ca86cc987cc2de680
+tags:
+  0.2.0--hec9b1f2_0: 
+    sha256:6e3d7c9a2f50e66e06652abf7074ab8525e5d92bb01c817ca86cc987cc2de680
+docker: quay.io/biocontainers/unmux
+aliases:
+  unmux: /usr/local/bin/unmux
diff --git a/quay.io/biocontainers/vaxrank/container.yaml b/quay.io/biocontainers/vaxrank/container.yaml
new file mode 100644
index 0000000000000..425ff4fd8928d
--- /dev/null
+++ b/quay.io/biocontainers/vaxrank/container.yaml
@@ -0,0 +1,90 @@
+url: https://biocontainers.pro/tools/vaxrank
+maintainer: '@vsoch'
+description: singularity registry hpc automated addition for vaxrank
+latest:
+  1.4.0--pyhdfd78af_0: 
+    sha256:d805b3795e21f621e27bbf947a206b9d5bac3881003e11d9f7c001fee556bfee
+tags:
+  1.4.0--pyhdfd78af_0: 
+    sha256:d805b3795e21f621e27bbf947a206b9d5bac3881003e11d9f7c001fee556bfee
+docker: quay.io/biocontainers/vaxrank
+aliases:
+  fits2bitmap: /usr/local/bin/fits2bitmap
+  fitscheck: /usr/local/bin/fitscheck
+  fitsdiff: /usr/local/bin/fitsdiff
+  fitsheader: /usr/local/bin/fitsheader
+  fitsinfo: /usr/local/bin/fitsinfo
+  isovar: /usr/local/bin/isovar
+  isovar-allele-counts: /usr/local/bin/isovar-allele-counts
+  isovar-allele-reads: /usr/local/bin/isovar-allele-reads
+  isovar-protein-sequences: /usr/local/bin/isovar-protein-sequences
+  isovar-reference-contexts: /usr/local/bin/isovar-reference-contexts
+  isovar-translations: /usr/local/bin/isovar-translations
+  isovar-variant-reads: /usr/local/bin/isovar-variant-reads
+  isovar-variant-sequences: /usr/local/bin/isovar-variant-sequences
+  mhcflurry-calibrate-percentile-ranks: 
+    /usr/local/bin/mhcflurry-calibrate-percentile-ranks
+  mhcflurry-class1-select-allele-specific-models: 
+    /usr/local/bin/mhcflurry-class1-select-allele-specific-models
+  mhcflurry-class1-select-pan-allele-models: 
+    /usr/local/bin/mhcflurry-class1-select-pan-allele-models
+  mhcflurry-class1-select-processing-models: 
+    /usr/local/bin/mhcflurry-class1-select-processing-models
+  mhcflurry-class1-train-allele-specific-models: 
+    /usr/local/bin/mhcflurry-class1-train-allele-specific-models
+  mhcflurry-class1-train-pan-allele-models: 
+    /usr/local/bin/mhcflurry-class1-train-pan-allele-models
+  mhcflurry-class1-train-presentation-models: 
+    /usr/local/bin/mhcflurry-class1-train-presentation-models
+  mhcflurry-class1-train-processing-models: 
+    /usr/local/bin/mhcflurry-class1-train-processing-models
+  mhcflurry-cluster-worker-entry-point: 
+    /usr/local/bin/mhcflurry-cluster-worker-entry-point
+  mhcflurry-downloads: /usr/local/bin/mhcflurry-downloads
+  mhcflurry-predict: /usr/local/bin/mhcflurry-predict
+  mhcflurry-predict-scan: /usr/local/bin/mhcflurry-predict-scan
+  mhcgnomes: /usr/local/bin/mhcgnomes
+  mhctools: /usr/local/bin/mhctools
+  protoc-35.1.0: /usr/local/bin/protoc-35.1.0
+  protoc-gen-upb-35.1.0: /usr/local/bin/protoc-gen-upb-35.1.0
+  protoc-gen-upb_minitable-35.1.0: 
+    /usr/local/bin/protoc-gen-upb_minitable-35.1.0
+  protoc-gen-upbdefs-35.1.0: /usr/local/bin/protoc-gen-upbdefs-35.1.0
+  psl: /usr/local/bin/psl
+  psl-make-dafsa: /usr/local/bin/psl-make-dafsa
+  pylint-config: /usr/local/bin/pylint-config
+  pypandoc: /usr/local/bin/pypandoc
+  roman: /usr/local/bin/roman
+  samp_hub: /usr/local/bin/samp_hub
+  showtable: /usr/local/bin/showtable
+  showtable-astropy: /usr/local/bin/showtable-astropy
+  varcode: /usr/local/bin/varcode
+  varcode-genes: /usr/local/bin/varcode-genes
+  vaxrank: /usr/local/bin/vaxrank
+  volint: /usr/local/bin/volint
+  wcslint: /usr/local/bin/wcslint
+  pyensembl: /usr/local/bin/pyensembl
+  isort-identify-imports: /usr/local/bin/isort-identify-imports
+  pylint: /usr/local/bin/pylint
+  pyreverse: /usr/local/bin/pyreverse
+  symilar: /usr/local/bin/symilar
+  debugpy-adapter: /usr/local/bin/debugpy-adapter
+  isort: /usr/local/bin/isort
+  debugpy: /usr/local/bin/debugpy
+  runxlrd.py: /usr/local/bin/runxlrd.py
+  fc-genconf: /usr/local/bin/fc-genconf
+  idna: /usr/local/bin/idna
+  get_gprof: /usr/local/bin/get_gprof
+  dask: /usr/local/bin/dask
+  vba_extract.py: /usr/local/bin/vba_extract.py
+  torchfrtrace: /usr/local/bin/torchfrtrace
+  pybind11-config: /usr/local/bin/pybind11-config
+  jupyter-kernel: /usr/local/bin/jupyter-kernel
+  jupyter-kernelspec: /usr/local/bin/jupyter-kernelspec
+  jupyter-run: /usr/local/bin/jupyter-run
+  protoc-gen-upb_minitable: /usr/local/bin/protoc-gen-upb_minitable
+  torch_shm_manager: /usr/local/bin/torch_shm_manager
+  h2benchmark: /usr/local/bin/h2benchmark
+  elastishadow: /usr/local/bin/elastishadow
+  curve_keygen: /usr/local/bin/curve_keygen
+  get_objgraph: /usr/local/bin/get_objgraph