diff options
author | V3n3RiX <venerix@redcorelinux.org> | 2020-11-25 22:39:15 +0000 |
---|---|---|
committer | V3n3RiX <venerix@redcorelinux.org> | 2020-11-25 22:39:15 +0000 |
commit | d934827bf44b7cfcf6711964418148fa60877668 (patch) | |
tree | 0625f358789b5e015e49db139cc1dbc9be00428f /sci-biology/lagan/files/lagan-2.0-qa-implicit-declarations.patch | |
parent | 2e34d110f164bf74d55fced27fe0000201b3eec5 (diff) |
gentoo resync : 25.11.2020
Diffstat (limited to 'sci-biology/lagan/files/lagan-2.0-qa-implicit-declarations.patch')
-rw-r--r-- | sci-biology/lagan/files/lagan-2.0-qa-implicit-declarations.patch | 63 |
1 files changed, 14 insertions, 49 deletions
diff --git a/sci-biology/lagan/files/lagan-2.0-qa-implicit-declarations.patch b/sci-biology/lagan/files/lagan-2.0-qa-implicit-declarations.patch index 4ba4ce49d770..29db043d5f34 100644 --- a/sci-biology/lagan/files/lagan-2.0-qa-implicit-declarations.patch +++ b/sci-biology/lagan/files/lagan-2.0-qa-implicit-declarations.patch @@ -1,69 +1,34 @@ -Fix QA warnings due to implicit declarations: -* filebuffer.c:123:34: warning: implicit declaration of function ‘toupper’ [-Wimplicit-function-declaration] -* temp[i] = (strchr (alphabet, toupper ((char) i)) != 0) ? - ---- a/src/filebuffer.c -+++ b/src/filebuffer.c -@@ -3,6 +3,7 @@ - #include <string.h> - #include <stdio.h> - #include <assert.h> -+#include <ctype.h> - - #ifdef CHAOS__FLAG - char* alphabet = "ATCGNPCMHDEKRQSILVFYWX*"; --- a/src/mlagan.c +++ b/src/mlagan.c -@@ -934,6 +934,7 @@ - return k; +@@ -46,6 +46,7 @@ + return 1; } +int printXMFAAlign(FILE* outfile, align* myalign); - int main(int argc, char** argv) { - FileBuffer seqfile; + void usage(void) { + printf("mlagan seqfile_1 seqfile_2 [... seqfile_%d] [-parameters]\n\n", --- a/src/order.c +++ b/src/order.c -@@ -398,6 +398,9 @@ - free(ends); - } +@@ -28,6 +28,8 @@ + + align* makeAlign(dmat* mydm, char* seq1, char* seq2); +int printMFAAlign(char* seq1, char* seq2, align* myalign, char* n1, char* n2); +int printXMFAAlign(char* seq1, char* seq2, align* myalign, char* n1, char* n2); -+ - void doAlign(dmat* mydm, seq* seq1, seq* seq2) { - align *a = (align*) makeAlign(mydm, seq1->lets, seq2->lets); - // printf("into printing\n"); + + char* alpha = "ATCGN."; + --- a/src/prolagan.c +++ b/src/prolagan.c -@@ -949,6 +949,7 @@ - return k; +@@ -49,6 +49,7 @@ + return 1; } +int printXMFAAlign(FILE* outfile, align* myalign); - int main(int argc, char** argv) { - FileBuffer seqfile; ---- a/src/utils/contigorder.c -+++ b/src/utils/contigorder.c -@@ -12,7 +12,7 @@ - int dummy, i; - - if (!(file = fopen (filename, "r"))){ -- fprintf (stderr, "contigorder: Error opening file: %s\n"); -+ fprintf (stderr, "contigorder: Error opening file: %s\n", filename); - exit (1); - } - -@@ -49,7 +49,7 @@ - } - - if (!(file = fopen (filename, "r"))){ -- fprintf (stderr, "contigorder: Error opening file: %s\n"); -+ fprintf (stderr, "contigorder: Error opening file: %s\n", filename); - exit (1); - } - + void usage(void) { + printf("mlagan seqfile_1 seqfile_2 [... seqfile_%d] [-parameters]\n\n", --- a/src/utils/cstat.c +++ b/src/utils/cstat.c @@ -3,6 +3,7 @@ |