gnu: Pin old pybind11 version.

* gnu/packages/python-xyz.scm (pybind11): Move definition to (pybind11-2).
(python-awkward-cpp, python-contourpy, python-hnswlib, python-dm-tree,
python-matplotlib, python-pikepdf, python-optree, python-fusepy): Change
reference to pybind11-2.

* gnu/packages/astronomy.scm (aoflagger, python-galsim, python-pyclp),
  gnu/packages/bioinformatics.scm (python-metacells, python-strawc,
  python-coolbox, python-pyspoa, python-scvelo),
  gnu/packages/chemistry.scm (avogadrolibs),
  gnu/packages/computer-architecture.scm (gem5),
  gnu/packages/duckdb.scm (python-duckdb),
  gnu/packages/electronics.scm (nextpnr, prjtrellis),
  gnu/packages/engineering.scm (python-orocos-kinematics-dynamics),
  gnu/packages/geo.scm (ogs-serial),
  gnu/packages/graphics.scm (openshadinglanguage, openimageio),
  gnu/packages/image-processing.scm (opencolorio),
  gnu/packages/machine-learning.scm (python-fasttext, python-ml-dtypes, onnx,
  onnx-optimizer, onnxruntime, dlib, tensorflow-lite, tensorpipe,
  python-pytorch, python-torchvision, python-ctranslate2, python-hmmlearn,
  python-dlib),
  gnu/packages/maths.scm (python-accupy, python-ducc0),
  gnu/packages/networking.scm (libcamera),
  gnu/packages/opencl.scm (python-pyopencl),
  gnu/packages/package-management.scm (python-libmambapy),
  gnu/packages/physics.scm (python-brille, python-gofit),
  gnu/packages/python-check.scm (python-xdoctest),
  gnu/packages/python-science.scm (pyre, python-boost-histogram, python-cvxpy,
  python-iminuit, python-osqp, python-pyamg, python-qdldl,
  python-scikit-build-core, python-scipy, python-vaex-core, python-pyfma),
  gnu/packages/radio.scm (gnuradio, gr-osmosdr, gr-dsd, gr-iqbal,
  gr-satellites, limesuite-ng),
  gnu/packages/simulation.scm (fenics, python-dolfin-adjoint),
  gnu/packages/statistics.scm (python-diptest, python-george),
  gnu/packages/syndication.scm (syndication-domination): Change reference to pybind11-2.

Change-Id: Ib6abc8580fc2b4c35172f251ff6ba7d80ced4b7b
Signed-off-by: Gabriel Wicki <gabriel@erlikon.ch>

1 files changed, 5 insertions, 5 deletions

diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm
index a08d9846cdd..88a4174b28f 100644
--- a/gnu/packages/bioinformatics.scm
+++ b/gnu/packages/bioinformatics.scm
@@ -3252,7 +3252,7 @@ and gene expression visualization.")
                              python-scipy
                              python-threadpoolctl
                              python-umap-learn))
-    (native-inputs (list pybind11 python-pytest python-setuptools))
+    (native-inputs (list pybind11-2 python-pytest python-setuptools))
     (home-page "https://github.com/tanaylab/metacells.git")
     (synopsis "Single-cell RNA Sequencing Analysis")
     (description "The metacells package implements the improved metacell
@@ -23875,7 +23875,7 @@ instruments, or Pacific Biosciences RSII or Sequel sequencers.")
     (inputs
      (list curl zlib))
     (propagated-inputs
-     (list pybind11))
+     (list pybind11-2))
     (home-page "https://github.com/aidenlab/straw")
     (synopsis "Stream data from .hic files")
     (description "Straw is library which allows rapid streaming of contact
@@ -24006,7 +24006,7 @@ e.g. from GenBank or Gff files, or Biopython SeqRecords.")
           ;; dependencies.
           (delete 'sanity-check))))
     (native-inputs
-     (list pybind11
+     (list pybind11-2
            python-pytest
            python-pypairix
            python-setuptools
@@ -24072,7 +24072,7 @@ browser.")
                  "-DCMAKE_CXX_FLAGS=\"-I ../vendor/cereal/include/\" -fPIC"
                  "..")
                 (invoke "make")))))))
-    (propagated-inputs (list pybind11))
+    (propagated-inputs (list pybind11-2))
     (native-inputs (list cmake-minimal python-setuptools))
     (home-page "https://github.com/nanoporetech/pyspoa")
     (synopsis "Python bindings for the SIMD partial order alignment library")
@@ -24159,7 +24159,7 @@ aligner.")
            python-scipy
            python-umap-learn
            ;; [optional]
-           pybind11
+           pybind11-2
            python-hnswlib
            python-igraph
            python-louvain))