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Full Discussion: How to make use others' C library installed not for the system-wide (Ubuntu/Linux)?
Top Forums Programming How to make use others' C library installed not for the system-wide (Ubuntu/Linux)? Post 303043002 by yifangt on Wednesday 15th of January 2020 03:02:13 PM
Old 01-15-2020
library path(s) and subfolders within
Thanks!

Does the -L option ensure the sub-directories are searched recursively?

The -lhtslib-1.10.2 option of your command line may be wrong in this case as htslib-1.10.2 is a folder under which there are several sub-folders and many *.c *.h *.o *.pico files, but I understand your point. Two files: libhts.so and libhts.a may be the ones I need(permission is checked to be correct). So I tried:
Code:
$ gcc -Wall -O3 -o vcf_parser01 vcf.c vcf_parser01.c  -Wl,-rpath,/home/yifangt/Study/C/VCF  -L/home/yifangt/Study/C/VCF/htslib-1.10.2 -lhts 

  /tmp/ccSYd2K4.o: In function `bcf_hdr_set_idx.isra.10':
vcf.c:(.text+0x11d5): undefined reference to `hts_resize_array_'
/tmp/ccSYd2K4.o: In function `vcf_hdr_read':
vcf.c:(.text+0x66ad): undefined reference to `tbx_index_load3'
/tmp/ccSYd2K4.o: In function `vcf_write':
vcf.c:(.text+0xd57a): undefined reference to `hts_idx_tbi_name'
/tmp/ccSYd2K4.o: In function `bcf_index_load3':
vcf.c:(.text+0xdd55): undefined reference to `hts_idx_load3'
/tmp/ccSYd2K4.o: In function `bcf_idx_save':
vcf.c:(.text+0xe181): undefined reference to `sam_idx_save'
collect2: error: ld returned 1 exit status

Under the htslib-1.10.2 folder, there are three sub folders cram/, htslib/ and m4/ that may be involved.

In htslib/ sub-folder, *.h files only, so that's for the headers;
In cram/ and m4/ sub-folders, there are *.c, *.h and *.o files (and some other types, which seems for portability, and may not be needed, very likely to me!);
Also I have tried archive the *.o files into library in the format as mylibx.a or mylibx.so files, the error stayed the same. I have attached the link to download the library and my src code. Could it be possible for you to download the library to have a look at the code? That may be easier than what I explained.
Thanks a lot.
Last edited by yifangt; 01-15-2020 at 04:08 PM.. Reason: Add high lighter, correct typos
 

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LEARN ABOUT DEBIAN

import-bug-from-debian

import-bug-from-debian(1)				      General Commands Manual					 import-bug-from-debian(1)

NAME

       import-bug-from-debian - Import bugs from Debian's BTS, and file them against Ubuntu in LP.

SYNOPSIS

       import-bug-from-debian [options] bug...
       import-bug-from-debian -h

DESCRIPTION

       import-bug-from-debian  clones  bugs  from Debian's BTS into Launchpad. Each bug listed on the command line has its initial report re-filed
       against the same source package in Ubuntu.  The Ubuntu bug is linked back to its Debian counterpart.

       Each bug may be provided either as a bug number or URL.

OPTIONS

       -b, --browserless
	      Don't open the bug in a browser at the end.

       -h, --help
	      Display a help message and exit.

       -l INSTANCE, --lpinstance=INSTANCE
	      Use the specified instance of Launchpad (e.g. "staging"), instead of the default of "production".

       -p PACKAGE, --package=PACKAGE
	      Launchpad package to file bug against, if not the same source package name as Debian.   Useful  for  importing  removal  bugs  filed
	      against ftp.debian.org.

       --no-conf
	      Do not read any configuration files, or configuration from environment variables.

ENVIRONMENT

       All  of	the  CONFIGURATION  VARIABLES  below are also supported as environment variables.  Variables in the environment take precedence to
       those in configuration files.

CONFIGURATION VARIABLES

       The following variables can be set in the environment or in ubuntu-dev-tools(5) configuration files.  In  each  case,  the  script-specific
       variable takes precedence over the package-wide variable.

       IMPORT_BUG_FROM_DEBIAN_LPINSTANCE, UBUNTUTOOLS_LPINSTANCE
	      The default value for --lpinstance.

SEE ALSO

       ubuntu-dev-tools(5)

AUTHORS

       import-bug-from-debian  was  written  by  James	Westby <james.westby@ubuntu.com>, and this manual page was written by Stefano Rivera <ste-
       fanor@ubuntu.com>.

       Both are released under the terms of the GNU General Public License, version 2.

ubuntu-dev-tools						 September 21 2010					 import-bug-from-debian(1)
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