Hi,
So I think I'm nearly there (part of the scm attached).
The last thing I'd like to do is run the python tests inside the
cargo-build-system but couldn't find an example of it. I don't
understand how to do that.
I get the following error, which is most probably me not knowing how to
write scheme.
```
error: in phase 'check-python-module': uncaught exception:
wrong-type-arg "apply" "Apply to non-list: ~S" (#f) (#f)
phase `check-python-module' failed after 0.0 seconds
Backtrace:
8 (primitive-load "/gnu/store/c2v51hzvlji63jbh0jwn5dbz10j…")
In guix/build/gnu-build-system.scm:
908:2 7 (gnu-build #:source _ #:outputs _ #:inputs _ #:phases . #)
In ice-9/boot-9.scm:
1752:10 6 (with-exception-handler _ _ #:unwind? _ # _)
In srfi/srfi-1.scm:
634:9 5 (for-each #<procedure 7ffff5f29c20 at guix/build/gnu-b…> …)
In ice-9/boot-9.scm:
1752:10 4 (with-exception-handler _ _ #:unwind? _ # _)
In guix/build/gnu-build-system.scm:
929:23 3 (_)
In unknown file:
2 (_ "/gnu/store/qzx9n7452cw0w11c96gvijdnmk6v82m2-python…" …)
In ice-9/boot-9.scm:
1685:16 1 (raise-exception _ #:continuable? _)
1685:16 0 (raise-exception _ #:continuable? _)
ice-9/boot-9.scm:1685:16: In procedure raise-exception:
In procedure apply: Apply to non-list: #f
```
Thanks
Alexis
On 15/02/2024 22:08, Alexis Simon wrote:
Hi,
So right now I'm trying to go the splitting in two packages way, similar
to what is done for python-cryptography.
So I managed to build the first one that produces a header file in the
store /gnu/store/*/lib/header.h
In the second package, I don't get how to copy this file inside the
build. I've been trying something like this:
```
(native-inputs (list python-fwdpy11-rust-lib))
(arguments
(list
#:phases
#~(modify-phases %standard-phases
(add-before 'build 'copy-rust-lib
(lambda* (#:key native-inputs #:allow-other-keys)
(copy-file (search-input-file
native-inputs "lib/fp11rust_api.h")
"lib/core/internal/fp11rust_api.h"))))))
```
Which complains there is no match, because it seams the package store
path is not present in the native-inputs, although I specify it in the
package.
Thanks,
Alexis
On 13/02/2024 13:55, Alexis Simon wrote:
Fair enough, I just meant that it's pretty hard as a newcomer to know
which build system You're supposed to use to start with when
encountering a project where several languages are used.
Alexis
On 13/02/2024 13:46, Carlo Zancanaro wrote:
On Tue, Feb 13 2024, Alexis Simon wrote:
Ok, this seems really counter intuitive though to go and use the cargo
build system for a python package only have a tiny part in rust.
I'm not sure why this is counter-intuitive. The existence of any rust at
all means you need to build rust code. The normal way to do that in Guix
is to use the cargo-build-system.
Equally, I don't find it strange that the upstream build instructions[1]
ask me to install a rust compiler and cbindgen. I need to do that if I
want to build rust code.
It's also worth noting that there are 22 packages in Cargo.lock[2], so
building the one rust file in the repository is a bit more involved.
Carlo
[1]: https://molpopgen.github.io/fwdpy11/misc/developersguide.html
[2]:
https://github.com/molpopgen/fwdpy11/blob/main/rust/fp11rust/Cargo.lock
(define-public fwdpy11
(package
(name "fwdpy11")
(version "0.21.6")
(source
(origin
(method url-fetch)
(uri (pypi-uri "fwdpy11" version))
(sha256
(base32 "1mgs7fcda3cr7a7kbnk0x50993131453rlrkq7nv4pxqw53lnrv3"))))
(build-system cargo-build-system)
(arguments
(list
#:imported-modules `(,@%cargo-build-system-modules
,@%pyproject-build-system-modules)
#:modules '((guix build cargo-build-system)
((guix build pyproject-build-system) #:prefix py:)
(guix build utils))
#:phases
#~(modify-phases %standard-phases
(add-after 'unpack 'chdir-rust
(lambda _
(chdir "rust/fp11rust")))
(replace 'unpack-rust-crates
;; This is to avoid the non-crate source from being erroneously
;; unpacked by this phase, causing an error.
(lambda* (#:key inputs #:allow-other-keys #:rest args)
(apply (assoc-ref %standard-phases 'unpack-rust-crates)
(append args
(list #:inputs (alist-delete "source" inputs))))))
(replace 'configure
(lambda* (#:key inputs #:allow-other-keys #:rest args)
(apply (assoc-ref %standard-phases 'configure)
(append args
(list #:inputs (alist-delete "source" inputs))))))
(delete 'build)
(delete 'check)
(delete 'install)
(delete 'package)
(add-before 'prepare-python-module 'chdir-root
(lambda _ (chdir "../..")))
(add-after 'prepare-python-module 'build-python-module
(assoc-ref py:%standard-phases 'build))
(add-after 'build-python-module 'install-python-module
(assoc-ref py:%standard-phases 'install))
(add-after 'install-python-module 'check-python-module
(lambda* (#:key inputs #:allow-other-keys #:rest args)
(apply (assoc-ref py:%standard-phases 'check) args)))
)
#:cargo-inputs
`(("rust-autocfg", rust-autocfg-1)
("rust-demes", rust-demes-0.5)
("rust-demes-forward", rust-demes-forward-0.4)
("rust-demes-forward-capi", rust-demes-forward-capi-0.4)
("rust-hashbrown", rust-hashbrown-0.12)
("rust-indexmap", rust-indexmap-1.8)
("rust-itoa", rust-itoa-1)
("rust-libc", rust-libc-0.2)
("rust-proc-macro2", rust-proc-macro2-1)
("rust-quote", rust-quote-1)
("rust-regex", rust-regex-1)
("rust-regex-syntax", rust-regex-syntax-0.6)
("rust-ryu", rust-ryu-1)
("rust-serde", rust-serde-1)
("rust-serde-derive", rust-serde-derive-1)
("rust-serde-yaml", rust-serde-yaml-0.9)
("rust-syn", rust-syn-1)
("rust-thiserror", rust-thiserror-1)
("rust-thiserror-impl", rust-thiserror-impl-1)
("rust-unicode-ident", rust-unicode-ident-1)
("rust-unsafe-libyaml", rust-unsafe-libyaml-0.2)
)
))
(native-inputs
(list python-wrapper
cmake
rust-cbindgen
gsl
pybind11
python-wheel
python-setuptools
python-setuptools-scm
python-pytest
python-pytest-xdist
python-hypothesis
python-msprime))
(propagated-inputs (list python-attrs
python-deprecated
python-black
python-demes
python-numpy
python-scipy
python-tskit))
(home-page "https://github.com/molpopgen/fwdpy11";)
(synopsis "Forward-time population genetic simulation in Python")
(description "Forward-time population genetic simulation in Python")
(license license:gpl3))
)
