@@ -111,6 +111,21 @@
"run" #$image "-c" "(exit 42)"))
marionette))
+ ;; FIXME: Singularity 2.x doesn't directly honor
+ ;; /.singularity.d/env/*.sh. Instead, you have to load those files
+ ;; manually, which we don't do. Remove 'test-skip' call once we've
+ ;; switch to Singularity 3.x.
+ (test-skip 1)
+ (test-equal "singularity run, with environment"
+ 0
+ (marionette-eval
+ ;; Check whether GUILE_LOAD_PATH is properly set, allowing us to
+ ;; find the (json) module.
+ `(status:exit-val
+ (system* #$(file-append singularity "/bin/singularity")
+ "--debug" "run" #$image "-c" "(use-modules (json))"))
+ marionette))
+
(test-end)
(exit (= (test-runner-fail-count (test-runner-current)) 0)))))
@@ -122,7 +137,8 @@
(guile (set-guile-for-build (default-guile)))
;; 'singularity exec' insists on having /bin/sh in the image.
(profile (profile-derivation (packages->manifest
- (list bash-minimal guile-2.2))
+ (list bash-minimal
+ guile-2.2 guile-json))
#:hooks '()
#:locales? #f))
(tarball (squashfs-image "singularity-pack" profile
@@ -286,6 +286,32 @@ added to the pack."
build
#:references-graphs `(("profile" ,profile))))
+(define (singularity-environment-file profile)
+ "Return a shell script that defines the environment variables corresponding
+to the search paths of PROFILE."
+ (define build
+ (with-extensions (list guile-gcrypt)
+ (with-imported-modules `(((guix config) => ,(make-config.scm))
+ ,@(source-module-closure
+ `((guix profiles)
+ (guix search-paths))
+ #:select? not-config?))
+ #~(begin
+ (use-modules (guix profiles) (guix search-paths)
+ (ice-9 match))
+
+ (call-with-output-file #$output
+ (lambda (port)
+ (for-each (match-lambda
+ ((spec . value)
+ (format port "~a=~a~%export ~a~%"
+ (search-path-specification-variable spec)
+ value
+ (search-path-specification-variable spec))))
+ (profile-search-paths #$profile))))))))
+
+ (computed-file "singularity-environment.sh" build))
+
(define* (squashfs-image name profile
#:key target
(profile-name "guix-profile")
@@ -305,6 +331,9 @@ added to the pack."
(file-append (store-database (list profile))
"/db/db.sqlite")))
+ (define environment
+ (singularity-environment-file profile))
+
(define build
(with-imported-modules (source-module-closure
'((guix build utils)
@@ -339,6 +368,7 @@ added to the pack."
`(,@(map store-info-item
(call-with-input-file "profile"
read-reference-graph))
+ #$environment
,#$output
;; Do not perform duplicate checking because we
@@ -379,10 +409,19 @@ added to the pack."
target)))))))
'#$symlinks)
+ "-p" "/.singularity.d d 555 0 0"
+
+ ;; Create the environment file.
+ "-p" "/.singularity.d/env d 555 0 0"
+ "-p" ,(string-append
+ "/.singularity.d/env/90-environment.sh s 777 0 0 "
+ (relative-file-name "/.singularity.d/env"
+ #$environment))
+
;; Create /.singularity.d/actions, and optionally the 'run'
;; script, used by 'singularity run'.
- "-p" "/.singularity.d d 555 0 0"
"-p" "/.singularity.d/actions d 555 0 0"
+
,@(if entry-point
`(;; This one if for Singularity 2.x.
"-p"
From: Ludovic Courtès <ludovic.courtes@inria.fr> * guix/scripts/pack.scm (singularity-environment-file): New procedure. (squashfs-image): Use it, and create /.singularity/env/90-environment.sh. * gnu/tests/singularity.scm (run-singularity-test)["singularity run, with environment"]: New test, currently skipped. * gnu/tests/singularity.scm (build-tarball&run-singularity-test): Add GUILE-JSON to the profile. --- gnu/tests/singularity.scm | 18 ++++++++++++++++- guix/scripts/pack.scm | 41 ++++++++++++++++++++++++++++++++++++++- 2 files changed, 57 insertions(+), 2 deletions(-)