Problems compiling with ZLIB

Question

I would like to compile third-party software, but I ran into a problem with ZLIB.

See below:

$sudo make gcc -Wall -pedantic -DVERSION=1.2 -lz -O3 sliding.o trim_single.o trim_paired.o sickle.o -o sickle trim_paired.o: In function `ks_getuntil': trim_paired.c:(.text+0x78): undefined reference to `gzread' trim_paired.o: In function `kseq_read': trim_paired.c:(.text+0x48d): undefined reference to `gzread' trim_paired.c:(.text+0x4dc): undefined reference to `gzread' trim_paired.c:(.text+0x60a): undefined reference to `gzread' trim_paired.c:(.text+0x687): undefined reference to `gzread' trim_paired.o: In function `paired_main': trim_paired.c:(.text+0xc62): undefined reference to `gzopen' trim_paired.c:(.text+0xc83): undefined reference to `gzopen' trim_paired.c:(.text+0x1142): undefined reference to `gzclose' trim_paired.c:(.text+0x114f): undefined reference to `gzclose' trim_single.o: In function `ks_getuntil': trim_single.c:(.text+0x78): undefined reference to `gzread' trim_single.o: In function `single_main': trim_single.c:(.text+0x688): undefined reference to `gzopen' trim_single.c:(.text+0x8ad): undefined reference to `gzread' trim_single.c:(.text+0x8f5): undefined reference to `gzread' trim_single.c:(.text+0xb11): undefined reference to `gzread' trim_single.c:(.text+0xb96): undefined reference to `gzread' trim_single.c:(.text+0xc58): undefined reference to `gzclose' collect2: ld returned 1 exit status make: *** [build] Error 1 

I use Ubuntu and I installed ZLIB 1.2.6 in / usr / local / lib

Here is the Makefile:

 PROGRAM_NAME = sickle VERSION = 1.2 CC = gcc CFLAGS = -Wall -pedantic -DVERSION=$(VERSION) DEBUG = -g OPT = -O3 ARCHIVE = $(PROGRAM_NAME)_$(VERSION) LDFLAGS = -lz SDIR = src .PHONY: clean default build distclean dist debug default: build sliding.o: $(SDIR)/sliding.c $(SDIR)/kseq.h $(SDIR)/sickle.h $(CC) $(CFLAGS) $(OPT) -c $(SDIR)/$*.c trim_single.o: $(SDIR)/trim_single.c $(SDIR)/sickle.h $(SDIR)/kseq.h $(CC) $(CFLAGS) $(OPT) -c $(SDIR)/$*.c trim_paired.o: $(SDIR)/trim_paired.c $(SDIR)/sickle.h $(SDIR)/kseq.h $(CC) $(CFLAGS) $(OPT) -c $(SDIR)/$*.c sickle.o: $(SDIR)/sickle.c $(SDIR)/sickle.h $(CC) $(CFLAGS) $(OPT) -c $(SDIR)/$*.c clean: rm -rf *.o $(SDIR)/*.gch ./sickle distclean: clean rm -rf *.tar.gz dist: tar -zcf $(ARCHIVE).tar.gz src Makefile build: sliding.o trim_single.o trim_paired.o sickle.o $(CC) $(CFLAGS) $(LDFLAGS) $(OPT) $? -o sickle debug: $(MAKE) build "CFLAGS=-Wall -pedantic -g -DDEBUG" 

Any help is appreciated;)

thanks

Answer 1

I found the answer myself! It works by changing:

 $(CC) $(CFLAGS) $(LDFLAGS) $(OPT) $? -o sickle 

to

 $(CC) $(CFLAGS) $(OPT) $? -o sickle $(LDFLAGS) 

the -lz option should be at the end.