Skip to content
New issue

Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.

Sign up for GitHub

By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.

Already on GitHub? Sign in to your account

specify source_urls inside exts_default_options in Seurat easyconfigs to ensure correct name expansion for the archived packages #17830

Merged
merged 1 commit into from
Apr 30, 2023
Merged

specify source_urls inside exts_default_options in Seurat easyconfigs to ensure correct name expansion for the archived packages #17830

Show file tree
Hide file tree
Changes from all commits
Commits
Show all changes
1 commit
Select commit
File filter

Filter by extension

Filter by extension
Conversations
Failed to load comments.
Loading
Jump to
Jump to file
Failed to load files.
Loading
Diff view
Diff view
18 changes: 8 additions & 10 deletions easybuild/easyconfigs/s/Seurat/Seurat-4.0.1-foss-2020b-R-4.0.3.eb
View file
Open in desktop
Original file line number Diff line number Diff line change
Expand Up @@ -9,37 +9,35 @@ description = "Seurat is an R package designed for QC, analysis, and exploration

toolchain = {'name': 'foss', 'version': '2020b'}

source_urls = [
'https://cran.r-project.org/src/contrib/Archive/%(name)s', # package archive
'https://cran.r-project.org/src/contrib/', # current version of packages
'https://cran.freestatistics.org/src/contrib', # mirror alternative for current packages
]

dependencies = [
('R', '4.0.3'),
('R-bundle-Bioconductor', '3.12', versionsuffix),
]

exts_defaultclass = 'RPackage'
exts_default_options = {'sources': ['%(name)s_%(version)s.tar.gz']}
exts_default_options = {
'sources': ['%(name)s_%(version)s.tar.gz'],
'source_urls': [
'https://cran.r-project.org/src/contrib/Archive/%(name)s', # package archive
'https://cran.r-project.org/src/contrib/', # current version of packages
'https://cran.freestatistics.org/src/contrib', # mirror alternative for current packages
],
}

exts_list = [
('spatstat.utils', '2.1-0', {
'source_urls': ['https://cran.r-project.org/src/contrib/Archive/spatstat.utils'],
'checksums': ['ed3569fea295b62396c49cdcfe476414b0b0f3e52044175532f316a402d3f8a1'],
}),
('spatstat.data', '2.1-0', {
'checksums': ['1b9840ad0ec7eddfa98a01e8b8a5291e5cb447c3082aa7d7b4df762577f95533'],
}),
('spatstat.geom', '2.0-1', {
'source_urls': ['https://cran.r-project.org/src/contrib/Archive/spatstat.geom'],
'checksums': ['70ebfe115e733b2e6778baf6e2935861472154c0dd21f15a84ec2a61e0a3f6e4'],
}),
('spatstat.sparse', '2.0-0', {
'checksums': ['27fbce64e21f095a5e9ac54c86f91c9f4b45eac3c2358580e04423b4beba19c7'],
}),
('spatstat.core', '2.0-0', {
'source_urls': ['https://cran.r-project.org/src/contrib/Archive/spatstat.core'],
'checksums': ['fde9a91bd32b7a3c8b25e802a16d470dcc919c24da5715149e1d91eeec119ba7'],
}),
(name, version, {
Expand Down
17 changes: 8 additions & 9 deletions easybuild/easyconfigs/s/Seurat/Seurat-4.0.3-foss-2020b-R-4.0.3.eb
View file
Open in desktop
Original file line number Diff line number Diff line change
Expand Up @@ -9,19 +9,20 @@ description = "Seurat is an R package designed for QC, analysis, and exploration

toolchain = {'name': 'foss', 'version': '2020b'}

source_urls = [
'https://cran.r-project.org/src/contrib/Archive/%(name)s', # package archive
'https://cran.r-project.org/src/contrib/', # current version of packages
'https://cran.freestatistics.org/src/contrib', # mirror alternative for current packages
]

dependencies = [
('R', '4.0.3'),
('R-bundle-Bioconductor', '3.12', versionsuffix),
]

exts_defaultclass = 'RPackage'
exts_default_options = {'sources': ['%(name)s_%(version)s.tar.gz']}
exts_default_options = {
'sources': ['%(name)s_%(version)s.tar.gz'],
'source_urls': [
'https://cran.r-project.org/src/contrib/Archive/%(name)s', # package archive
'https://cran.r-project.org/src/contrib/', # current version of packages
'https://cran.freestatistics.org/src/contrib', # mirror alternative for current packages
],
}

exts_list = [
('spatstat.utils', '2.2-0', {
Expand All @@ -31,14 +32,12 @@ exts_list = [
'checksums': ['1b9840ad0ec7eddfa98a01e8b8a5291e5cb447c3082aa7d7b4df762577f95533'],
}),
('spatstat.geom', '2.2-0', {
'source_urls': ['https://cran.r-project.org/src/contrib/Archive/spatstat.geom'],
'checksums': ['70b063a7f317f531b2afb3afaedb047fce81b39ee481a4067962529d6069634c'],
}),
('spatstat.sparse', '2.0-0', {
'checksums': ['27fbce64e21f095a5e9ac54c86f91c9f4b45eac3c2358580e04423b4beba19c7'],
}),
('spatstat.core', '2.2-0', {
'source_urls': ['https://cran.r-project.org/src/contrib/Archive/spatstat.core'],
'checksums': ['0ecbc1ae688c8d4f41db3efa6253ac8db5c432ef714240d01a2b195950d65253'],
}),
('Matrix', '1.3-4', {
Expand Down
15 changes: 8 additions & 7 deletions easybuild/easyconfigs/s/Seurat/Seurat-4.2.0-foss-2022a-R-4.2.1.eb
View file
Open in desktop
Original file line number Diff line number Diff line change
Expand Up @@ -9,19 +9,20 @@ description = "Seurat is an R package designed for QC, analysis, and exploration

toolchain = {'name': 'foss', 'version': '2022a'}

source_urls = [
'https://cran.r-project.org/src/contrib/Archive/%(name)s', # package archive
'https://cran.r-project.org/src/contrib/', # current version of packages
'https://cran.freestatistics.org/src/contrib', # mirror alternative for current packages
]

dependencies = [
('R', '4.2.1'),
('R-bundle-Bioconductor', '3.15', versionsuffix),
]

exts_defaultclass = 'RPackage'
exts_default_options = {'sources': ['%(name)s_%(version)s.tar.gz']}
exts_default_options = {
'sources': ['%(name)s_%(version)s.tar.gz'],
'source_urls': [
'https://cran.r-project.org/src/contrib/Archive/%(name)s', # package archive
'https://cran.r-project.org/src/contrib/', # current version of packages
'https://cran.freestatistics.org/src/contrib', # mirror alternative for current packages
],
}

exts_list = [
('Matrix', '1.5-1', {
Expand Down
15 changes: 8 additions & 7 deletions easybuild/easyconfigs/s/Seurat/Seurat-4.3.0-foss-2021b-R-4.1.2.eb
View file
Open in desktop
Original file line number Diff line number Diff line change
Expand Up @@ -9,19 +9,20 @@ description = "Seurat is an R package designed for QC, analysis, and exploration

toolchain = {'name': 'foss', 'version': '2021b'}

source_urls = [
'https://cran.r-project.org/src/contrib/Archive/%(name)s', # package archive
'https://cran.r-project.org/src/contrib/', # current version of packages
'https://cran.freestatistics.org/src/contrib', # mirror alternative for current packages
]

dependencies = [
('R', '4.1.2'),
('R-bundle-Bioconductor', '3.14', versionsuffix),
]

exts_defaultclass = 'RPackage'
exts_default_options = {'sources': ['%(name)s_%(version)s.tar.gz']}
exts_default_options = {
'sources': ['%(name)s_%(version)s.tar.gz'],
'source_urls': [
'https://cran.r-project.org/src/contrib/Archive/%(name)s', # package archive
'https://cran.r-project.org/src/contrib/', # current version of packages
'https://cran.freestatistics.org/src/contrib', # mirror alternative for current packages
],
}

exts_list = [
('Matrix', '1.5-3', {
Expand Down
15 changes: 8 additions & 7 deletions easybuild/easyconfigs/s/Seurat/Seurat-4.3.0-foss-2022a-R-4.2.1.eb
View file
Open in desktop
Original file line number Diff line number Diff line change
Expand Up @@ -9,19 +9,20 @@ description = "Seurat is an R package designed for QC, analysis, and exploration

toolchain = {'name': 'foss', 'version': '2022a'}

source_urls = [
'https://cran.r-project.org/src/contrib/Archive/%(name)s', # package archive
'https://cran.r-project.org/src/contrib/', # current version of packages
'https://cran.freestatistics.org/src/contrib', # mirror alternative for current packages
]

dependencies = [
('R', '4.2.1'),
('R-bundle-Bioconductor', '3.15', versionsuffix),
]

exts_defaultclass = 'RPackage'
exts_default_options = {'sources': ['%(name)s_%(version)s.tar.gz']}
exts_default_options = {
'sources': ['%(name)s_%(version)s.tar.gz'],
'source_urls': [
'https://cran.r-project.org/src/contrib/Archive/%(name)s', # package archive
'https://cran.r-project.org/src/contrib/', # current version of packages
'https://cran.freestatistics.org/src/contrib', # mirror alternative for current packages
],
}

exts_list = [
('Matrix', '1.5-4', {
Expand Down