Actualiser .gitmodules

.gitmodules

@@ -1,3 +1,3 @@
 [submodule "sumalibs"]
 	path = sumalibs
-	url = https://git.metabarcoding.org/obitools/sumalibs.git
+	url = https://forge.metabarcoding.org/obitools/sumalibs.git

Makefile

@@ -1,3 +1,7 @@
+PREFIX=/usr/local
+
+CFLAGS=-I$(PREFIX)/include
+
 EXEC = sumaclust
 
 SUMACLUST_SRC = sumaclust.c \
@@ -42,3 +46,7 @@ clean:
 	rm -f $(EXEC)
 	$(MAKE) -C ./sumalibs clean
 
+install: all
+	install -d $(DESTDIR)$(PREFIX)/bin/
+	install -m 755 $(EXEC) $(DESTDIR)$(PREFIX)/bin/
+

mtcompare_sumaclust.c

@@ -15,10 +15,10 @@
 #include <math.h>
 #include <sys/time.h>
 
-#include "./sumalibs/libfasta/sequence.h"
-#include "./sumalibs/libutils/utilities.h"
-#include "./sumalibs/liblcs/upperband.h"
-#include "./sumalibs/liblcs/sse_banded_LCS_alignment.h"
+#include "sumalibs/libfasta/sequence.h"
+#include "sumalibs/libutils/utilities.h"
+#include "sumalibs/liblcs/upperband.h"
+#include "sumalibs/liblcs/sse_banded_LCS_alignment.h"
 
 #include "sumaclust.h"
 

sumaclust.c

@@ -12,18 +12,18 @@
 #include <math.h>
 #include <sys/time.h>
 
-#include "./sumalibs/libutils/utilities.h"
-#include "./sumalibs/libfasta/sequence.h"
-#include "./sumalibs/libfasta/fasta_header_parser.h"
-#include "./sumalibs/libfasta/fasta_header_handler.h"
-#include "./sumalibs/libfasta/fasta_seq_writer.h"
-#include "./sumalibs/liblcs/upperband.h"
-#include "./sumalibs/liblcs/sse_banded_LCS_alignment.h"
+#include "sumalibs/libutils/utilities.h"
+#include "sumalibs/libfasta/sequence.h"
+#include "sumalibs/libfasta/fasta_header_parser.h"
+#include "sumalibs/libfasta/fasta_header_handler.h"
+#include "sumalibs/libfasta/fasta_seq_writer.h"
+#include "sumalibs/liblcs/upperband.h"
+#include "sumalibs/liblcs/sse_banded_LCS_alignment.h"
 
 #include "mtcompare_sumaclust.h"
 #include "sumaclust.h"
 
-#define VERSION "1.0.32"
+#define VERSION "1.0.36"
 
 
 /* ----------------------------------------------- */

sumaclust_user_manual.md

@@ -29,7 +29,8 @@ Untar the archive, go into the newly created directory and compile:
 ```
 tar –zxvf sumaclust_v[x.x.xx].tar.gz
 cd sumaclust_v[x.x.xx]
-make
+make -C sumalibs install
+make install
 ```
 
 You can compile Sumaclust with `clang`, which deactivates `OpenMP`, with: