git: 63e5ba4396f4 - main - biology/bcf-score: Unbreak build with clang 16
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Date: Sun, 16 Jul 2023 13:20:21 UTC
The branch main has been updated by jwb:
URL: https://cgit.FreeBSD.org/ports/commit/?id=63e5ba4396f40d97df99b2856113afcb7623d7c9
commit 63e5ba4396f40d97df99b2856113afcb7623d7c9
Author: Jason W. Bacon <jwb@FreeBSD.org>
AuthorDate: 2023-07-16 13:19:06 +0000
Commit: Jason W. Bacon <jwb@FreeBSD.org>
CommitDate: 2023-07-16 13:19:06 +0000
biology/bcf-score: Unbreak build with clang 16
Patch function pointer assignments that went from warning to error
with the compiler upgrade
Reported by: pkg-fallout
---
biology/bcf-score/Makefile | 1 +
biology/bcf-score/files/patch-plugins_munge.c | 11 +++++++++++
biology/bcf-score/files/patch-plugins_score.c | 11 +++++++++++
3 files changed, 23 insertions(+)
diff --git a/biology/bcf-score/Makefile b/biology/bcf-score/Makefile
index 96207e1f8f84..f183641f4a4f 100644
--- a/biology/bcf-score/Makefile
+++ b/biology/bcf-score/Makefile
@@ -1,5 +1,6 @@
PORTNAME= bcf-score
DISTVERSION= 1.16
+PORTREVISION= 1
CATEGORIES= biology
MASTER_SITES= https://software.broadinstitute.org/software/score/
DISTFILES+= score_${DISTVERSION}-20221221.tar.gz
diff --git a/biology/bcf-score/files/patch-plugins_munge.c b/biology/bcf-score/files/patch-plugins_munge.c
new file mode 100644
index 000000000000..8906f57a0a73
--- /dev/null
+++ b/biology/bcf-score/files/patch-plugins_munge.c
@@ -0,0 +1,11 @@
+--- plugins/munge.c.orig 2023-07-16 07:57:54 UTC
++++ plugins/munge.c
+@@ -120,7 +120,7 @@ int tsv_read_string(tsv_t *tsv, bcf1_t *rec, void *usr
+ return 0;
+ }
+
+-static const int (*tsv_setters[])(tsv_t *tsv, bcf1_t *rec, void *usr) = {tsv_setter_id_flexible, // SNP
++static int (*tsv_setters[])(tsv_t *tsv, bcf1_t *rec, void *usr) = {tsv_setter_id_flexible, // SNP
+ tsv_setter_pos_flexible, // BP
+ tsv_setter_chrom_flexible, // CHR
+ tsv_read_allele, // A1
diff --git a/biology/bcf-score/files/patch-plugins_score.c b/biology/bcf-score/files/patch-plugins_score.c
new file mode 100644
index 000000000000..c90a66f313b6
--- /dev/null
+++ b/biology/bcf-score/files/patch-plugins_score.c
@@ -0,0 +1,11 @@
+--- plugins/score.c.orig 2023-07-16 08:04:54 UTC
++++ plugins/score.c
+@@ -140,7 +140,7 @@ static int tsv_read_allele(tsv_t *tsv, bcf1_t *rec, vo
+ return 0;
+ }
+
+-static const int (*tsv_setters[])(tsv_t *tsv, bcf1_t *rec, void *usr) = {tsv_setter_id_flexible, // SNP
++static int (*tsv_setters[])(tsv_t *tsv, bcf1_t *rec, void *usr) = {tsv_setter_id_flexible, // SNP
+ tsv_setter_pos_flexible, // BP
+ tsv_setter_chrom_flexible, // CHR
+ tsv_read_allele, // A1