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Several bug fixes Support for RISC-V Improved testing Changes: https://github.com/torognes/vsearch/releases Reported by: portscout
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Jason W. Bacon
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Jason W. Bacon
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Oct 21, 2024
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| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -1,6 +1,6 @@ | ||
| PORTNAME= vsearch | ||
| DISTVERSIONPREFIX= v | ||
| DISTVERSION= 2.28.1 | ||
| DISTVERSION= 2.29.0 | ||
| CATEGORIES= biology | ||
|
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| MAINTAINER= [email protected] | ||
|
|
||
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| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -1,3 +1,3 @@ | ||
| TIMESTAMP = 1714566699 | ||
| SHA256 (torognes-vsearch-v2.28.1_GH0.tar.gz) = 4f8bf0ad43fef77e573d152b59f55a1f81eb84c22d6545911757e6108f8de21c | ||
| SIZE (torognes-vsearch-v2.28.1_GH0.tar.gz) = 272918 | ||
| TIMESTAMP = 1729339584 | ||
| SHA256 (torognes-vsearch-v2.29.0_GH0.tar.gz) = 2c5bd0d9b3c2ec8eecd1af06ae11611138d87fdfecfa423ae791d52dccd27e63 | ||
| SIZE (torognes-vsearch-v2.29.0_GH0.tar.gz) = 283459 |
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| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -0,0 +1,18 @@ | ||
| --- src/searchcore.cc.orig 2024-09-26 10:48:55 UTC | ||
| +++ src/searchcore.cc | ||
| @@ -239,9 +239,14 @@ auto search_topscores(struct searchinfo_s * si) -> voi | ||
| if (bitmap) | ||
| { | ||
| #ifdef __x86_64__ | ||
| + // Not sure how to enable ssse3 without enabling other | ||
| + // non-portable features. | ||
| + // This code is only used rarely, so disable ssse3 for now. | ||
| + // It won't affect performance much on the whole. | ||
| + // https://github.com/torognes/vsearch/pull/497 | ||
| if (ssse3_present) | ||
| { | ||
| - increment_counters_from_bitmap_ssse3(si->kmers, | ||
| + increment_counters_from_bitmap_sse2(si->kmers, | ||
| bitmap, indexed_count); | ||
| } | ||
| else |
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| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -0,0 +1,18 @@ | ||
| --- src/sintax.cc.orig 2024-09-26 10:48:55 UTC | ||
| +++ src/sintax.cc | ||
| @@ -289,9 +289,14 @@ auto sintax_search_topscores(struct searchinfo_s * si) | ||
| if (bitmap) | ||
| { | ||
| #ifdef __x86_64__ | ||
| + // Not sure how to enable ssse3 without enabling other | ||
| + // non-portable features. | ||
| + // This code is only used rarely, so disable ssse3 for now. | ||
| + // It won't affect performance much on the whole. | ||
| + // https://github.com/torognes/vsearch/pull/497 | ||
| if (ssse3_present) | ||
| { | ||
| - increment_counters_from_bitmap_ssse3(si->kmers, | ||
| + increment_counters_from_bitmap_sse2(si->kmers, | ||
| bitmap, indexed_count); | ||
| } | ||
| else |