Package: prime-phylo Followup-For: Bug #1066653 User: ubuntu-de...@lists.ubuntu.com Usertags: origin-ubuntu noble ubuntu-patch Control: tags -1 patch
Dear Maintainer, In Ubuntu, the attached patch was applied to achieve the following: * debian/patches/fix-ftbfs-with-gcc13.patch: Fix missing headers and missing prototypes. Closes LP: #2061032. Thanks for considering the patch. -- System Information: Debian Release: bookworm/sid APT prefers jammy-updates APT policy: (500, 'jammy-updates'), (500, 'jammy-security'), (500, 'jammy'), (100, 'jammy-backports') Architecture: amd64 (x86_64) Foreign Architectures: i386 Kernel: Linux 6.5.0-26-generic (SMP w/10 CPU threads; PREEMPT) Kernel taint flags: TAINT_PROPRIETARY_MODULE, TAINT_OOT_MODULE Locale: LANG=en_CA.UTF-8, LC_CTYPE=en_CA.UTF-8 (charmap=UTF-8), LANGUAGE=en_CA:en Shell: /bin/sh linked to /usr/bin/dash Init: systemd (via /run/systemd/system) LSM: AppArmor: enabled
diff -Nru prime-phylo-1.0.11/debian/patches/fix-ftbfs-with-gcc13.patch prime-phylo-1.0.11/debian/patches/fix-ftbfs-with-gcc13.patch --- prime-phylo-1.0.11/debian/patches/fix-ftbfs-with-gcc13.patch 1969-12-31 17:00:00.000000000 -0700 +++ prime-phylo-1.0.11/debian/patches/fix-ftbfs-with-gcc13.patch 2024-04-11 16:13:25.000000000 -0600 @@ -0,0 +1,54 @@ +Description: Fix missing headers and missing prototypes +Author: Zixing Liu <zixing....@canonical.com> +Bug-Ubuntu: https://bugs.launchpad.net/debian/+source/prime-phylo/+bug/2061032 +Forwarded: no +Last-Update: 2024-04-11 +Index: prime-phylo/src/cxx/libraries/prime/NHXparse.y +=================================================================== +--- prime-phylo.orig/src/cxx/libraries/prime/NHXparse.y ++++ prime-phylo/src/cxx/libraries/prime/NHXparse.y +@@ -2,6 +2,7 @@ + #include <string.h> + #include <stdio.h> + #include <stdlib.h> ++#include <unistd.h> + #include "NHXnode.h" + #include "NHXtree.h" + #include "NHXannotation.h" +@@ -14,7 +15,9 @@ + /* #define YYERROR_VERBOSE */ + + /* Here comes some C declarations */ +- ++extern int yylex (void); ++extern void read_from_string(char *str); ++extern void close_string_buffer(); + extern FILE *yytree_in; + extern char *yytree_text; + extern unsigned int lineno; /* Current line number in input file */ +Index: prime-phylo/src/cxx/libraries/sfile/gb.y +=================================================================== +--- prime-phylo.orig/src/cxx/libraries/sfile/gb.y ++++ prime-phylo/src/cxx/libraries/sfile/gb.y +@@ -23,7 +23,8 @@ + #include "entry.h" + #include "sfile.h" + +- ++extern int yylex (void); ++unsigned linenumber(); + static int yyerror(); + + #define YYDEBUG 1 +Index: prime-phylo/src/cxx/libraries/sfile/gbread.c +=================================================================== +--- prime-phylo.orig/src/cxx/libraries/sfile/gbread.c ++++ prime-phylo/src/cxx/libraries/sfile/gbread.c +@@ -3,6 +3,7 @@ + + extern int yydebug; + ++#include <string.h> + #include "sfile.h" + #include "gb.tab.h" + diff -Nru prime-phylo-1.0.11/debian/patches/series prime-phylo-1.0.11/debian/patches/series --- prime-phylo-1.0.11/debian/patches/series 2021-05-20 05:51:42.000000000 -0600 +++ prime-phylo-1.0.11/debian/patches/series 2024-04-11 16:10:29.000000000 -0600 @@ -3,3 +3,4 @@ fix-gcc-8.patch 0003-Fix-build-with-Boost-1.67.patch 0004-fix-gcc10-build.patch +fix-ftbfs-with-gcc13.patch