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sci-biology/minimap2

splice-aware sequence aligner with SSE2 and SSE4.1

Screenshots

  • minimap2-2.24
    ~amd64 ~x86
    python cpu_flags_x86_sse4_1 python_targets_python3_10

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    Overlay: science

ChangeLog

commit bed38d563364c22bbc8282b756602f453bd79bc3
Author: Horea Christian <chr@chymera.eu>
Date: Wed Mar 22 16:14:46 2023 -0400

sci-biology/minimap2: update upstream metadata

Signed-off-by: Horea Christian <chr@chymera.eu>

commit 013a94d87d9a4ff23a9db6e4f02ae7d113580f2d
Author: Andrew Ammerlaan <andrewammerlaan@gentoo.org>
Date: Thu Jan 12 12:40:54 2023 +0100

*/*: drop py3.8 and py3.9 where py3.10+ already enabled

Signed-off-by: Andrew Ammerlaan <andrewammerlaan@gentoo.org>

commit 19fb6fba9514187c9c16052b5f93866d53858b55
Author: Andrew Ammerlaan <andrewammerlaan@gentoo.org>
Date: Sat Jan 15 14:05:12 2022 +0100

sci-biology/minimap2: version bump 2.24, add python flag

Closes: https://github.com/gentoo/sci/issues/1125
Package-Manager: Portage-3.0.30, Repoman-3.0.3
Signed-off-by: Andrew Ammerlaan <andrewammerlaan@gentoo.org>

commit 9cc5624d960c108c42d7f48752832da2baa9aa99
Author: Andrew Ammerlaan <andrewammerlaan@gentoo.org>
Date: Thu Dec 16 11:28:39 2021 +0100

sci-biology/minimap2: drop UnusedInherits

Package-Manager: Portage-3.0.28, Repoman-3.0.3
Signed-off-by: Andrew Ammerlaan <andrewammerlaan@gentoo.org>

commit 227e281f30db2fd020beda0f962166b4783c5d95
Author: Martin Mokrejs <mmokrejs@gmail.com>
Date: Tue Nov 30 13:41:07 2021 +0100

sci-biology/minimap2: install more files, document incompleteness

I added notes on supported CPU instructions and additional python
bindings. Note the static library is linked into the minimap2 binary
by default but I think it may be handy to install the library and header
file too.

Package-Manager: Portage-3.0.28, Repoman-3.0.3
Signed-off-by: Martin Mokrejs <mmokrejs@gmail.com>

commit 6def45a03309ee5cee96b1b4988ab8c874d4f6df
Author: Martin Mokrejs <mmokrejs@gmail.com>
Date: Tue Nov 30 12:54:26 2021 +0100

sci-biology/minimap2: version bump

Respect CFLAGS although the Makefile compiles different routines
for SSE4.1 processors. The options appear later on the commandline
so should override eventual CFLAGS -mtune and -march values.

Package-Manager: Portage-3.0.28, Repoman-3.0.3
Signed-off-by: Martin Mokrejs <mmokrejs@gmail.com>

commit 010d62d1ee091d576e54e6b7781d668594c253a3
Author: Andrew Ammerlaan <andrewammerlaan@riseup.net>
Date: Thu Mar 18 20:53:16 2021 +0100

sci-biology/minimap2: remove redundanturirename

Package-Manager: Portage-3.0.17, Repoman-3.0.2
Signed-off-by: Andrew Ammerlaan <andrewammerlaan@riseup.net>

commit 601c9013c6e86a87af3ca3b3185c285bccdf90ce
Author: Martin Mokrejs <mmokrejs@gmail.com>
Date: Wed Mar 17 19:19:11 2021 +0100

sci-biology/minimap2: new package

Arguably we could do something about CPUFLAGS but as the
package compiles its for for all SSE2 up to SSE4.1 combinations
maybe we only should ensure -mtune and -march options
were filtered by the ebuild.

Package-Manager: Portage-3.0.17, Repoman-3.0.2
Signed-off-by: Martin Mokrejs <mmokrejs@gmail.com>