Hi, I'm getting the error below when trying to compile bedGraphtoBigWig on Linux. Other tools compile fine. I checked and MYSQLLIBS, MYSQLINC are setup according to the instructions.
Thanks. gcc -O -g -o /home/gde4/bin/x86_64/bedGraphToBigWig bedGraphToBigWig.o ../../lib/x86_64/jkweb.a -lssl -lcrypto /usr/lib64/libpng.a -lm -lz /var/usr/bin/../lib/gcc/x86_64-redhat-linux/4.1.2/../../../../lib64/libssl.a(kssl.o): In function `get_rc_clockskew': (.text+0xbe): undefined reference to `krb5_rc_default' /var/usr/bin/../lib/gcc/x86_64-redhat-linux/4.1.2/../../../../lib64/libssl.a(kssl.o): In function `get_rc_clockskew': (.text+0xd0): undefined reference to `krb5_rc_initialize' /var/usr/bin/../lib/gcc/x86_64-redhat-linux/4.1.2/../../../../lib64/libssl.a(kssl.o): In function `get_rc_clockskew': (.text+0xf0): undefined reference to `krb5_rc_get_lifespan' /var/usr/bin/../lib/gcc/x86_64-redhat-linux/4.1.2/../../../../lib64/libssl.a(kssl.o): In function `get_rc_clockskew': (.text+0x10a): undefined reference to `krb5_rc_destroy' /var/usr/bin/../lib/gcc/x86_64-redhat-linux/4.1.2/../../../../lib64/libssl.a(kssl.o): In function `kssl_validate_times': (.text+0x13c): undefined reference to `krb5_init_context' /var/usr/bin/../lib/gcc/x86_64-redhat-linux/4.1.2/../../../../lib64/libssl.a(kssl.o): In function `kssl_validate_times': (.text+0x159): undefined reference to `krb5_timeofday' /var/usr/bin/../lib/gcc/x86_64-redhat-linux/4.1.2/../../../../lib64/libssl.a(kssl.o): In function `kssl_validate_times': (.text+0x185): undefined reference to `krb5_free_context' /var/usr/bin/../lib/gcc/x86_64-redhat-linux/4.1.2/../../../../lib64/libssl.a(kssl.o): In function `kssl_tgt_is_available': (.text+0x269): undefined reference to `krb5_init_context' /var/usr/bin/../lib/gcc/x86_64-redhat-linux/4.1.2/../../../../lib64/libssl.a(kssl.o): In function `kssl_tgt_is_available': (.text+0x286): undefined reference to `krb5_free_principal' /var/usr/bin/../lib/gcc/x86_64-redhat-linux/4.1.2/../../../../lib64/libssl.a(kssl.o): In function `kssl_tgt_is_available': (.text+0x29d): undefined reference to `krb5_free_principal' /var/usr/bin/../lib/gcc/x86_64-redhat-linux/4.1.2/../../../../lib64/libssl.a(kssl.o): In function `kssl_tgt_is_available': (.text+0x2af): undefined reference to `krb5_free_context' /var/usr/bin/../lib/gcc/x86_64-redhat-linux/4.1.2/../../../../lib64/libssl.a(kssl.o): In function `kssl_tgt_is_available': (.text+0x2e8): undefined reference to `krb5_sname_to_principal' /var/usr/bin/../lib/gcc/x86_64-redhat-linux/4.1.2/../../../../lib64/libssl.a(kssl.o): In function `kssl_tgt_is_available': (.text+0x301): undefined reference to `krb5_cc_default' /var/usr/bin/../lib/gcc/x86_64-redhat-linux/4.1.2/../../../../lib64/libssl.a(kssl.o): In function `kssl_tgt_is_available': (.text+0x323): undefined reference to `krb5_cc_get_principal' /var/usr/bin/../lib/gcc/x86_64-redhat-linux/4.1.2/../../../../lib64/libssl.a(kssl.o): In function `kssl_tgt_is_available': (.text+0x34f): undefined reference to `krb5_get_credentials' /var/usr/bin/../lib/gcc/x86_64-redhat-linux/4.1.2/../../../../lib64/libssl.a(kssl.o): In function `kssl_keytab_is_available': (.text+0x39c): undefined reference to `krb5_init_context' /var/usr/bin/../lib/gcc/x86_64-redhat-linux/4.1.2/../../../../lib64/libssl.a(kssl.o): In function `kssl_keytab_is_available': (.text+0x3b8): undefined reference to `krb5_kt_resolve' /var/usr/bin/../lib/gcc/x86_64-redhat-linux/4.1.2/../../../../lib64/libssl.a(kssl.o): In function `kssl_keytab_is_available': (.text+0x3d2): undefined reference to `krb5_kt_close' /var/usr/bin/../lib/gcc/x86_64-redhat-linux/4.1.2/../../../../lib64/libssl.a(kssl.o): In function `kssl_keytab_is_available': (.text+0x3e6): undefined reference to `krb5_free_principal' /var/usr/bin/../lib/gcc/x86_64-redhat-linux/4.1.2/../../../../lib64/libssl.a(kssl.o): In function `kssl_keytab_is_available': (.text+0x3f5): undefined reference to `krb5_free_context' /var/usr/bin/../lib/gcc/x86_64-redhat-linux/4.1.2/../../../../lib64/libssl.a(kssl.o): In function `kssl_keytab_is_available': (.text+0x40d): undefined reference to `krb5_kt_default' /var/usr/bin/../lib/gcc/x86_64-redhat-linux/4.1.2/../../../../lib64/libssl.a(kssl.o): In function `kssl_keytab_is_available': (.text+0x439): undefined reference to `krb5_sname_to_principal' /var/usr/bin/../lib/gcc/x86_64-redhat-linux/4.1.2/../../../../lib64/libssl.a(kssl.o): In function `kssl_keytab_is_available': (.text+0x462): undefined reference to `krb5_kt_get_entry' /var/usr/bin/../lib/gcc/x86_64-redhat-linux/4.1.2/../../../../lib64/libssl.a(kssl.o): In function `kssl_keytab_is_available': (.text+0x482): undefined reference to `krb5_kt_free_entry' /var/usr/bin/../lib/gcc/x86_64-redhat-linux/4.1.2/../../../../lib64/libssl.a(kssl.o): In function `populate_cksumlens': (.text+0x8db): undefined reference to `valid_cksumtype' /var/usr/bin/../lib/gcc/x86_64-redhat-linux/4.1.2/../../../../lib64/libssl.a(kssl.o): In function `populate_cksumlens': (.text+0x8fe): undefined reference to `krb5_checksum_size' /var/usr/bin/../lib/gcc/x86_64-redhat-linux/4.1.2/../../../../lib64/libssl.a(kssl.o): In function `populate_cksumlens': (.text+0x93d): undefined reference to `krb5_checksum_size' /var/usr/bin/../lib/gcc/x86_64-redhat-linux/4.1.2/../../../../lib64/libssl.a(kssl.o): In function `kssl_cget_tkt': (.text+0x13d5): undefined reference to `krb5_init_context' /var/usr/bin/../lib/gcc/x86_64-redhat-linux/4.1.2/../../../../lib64/libssl.a(kssl.o): In function `kssl_cget_tkt': (.text+0x140b): undefined reference to `krb5_sname_to_principal' /var/usr/bin/../lib/gcc/x86_64-redhat-linux/4.1.2/../../../../lib64/libssl.a(kssl.o): In function `kssl_cget_tkt': (.text+0x1459): undefined reference to `krb5_free_principal' /var/usr/bin/../lib/gcc/x86_64-redhat-linux/4.1.2/../../../../lib64/libssl.a(kssl.o): In function `kssl_cget_tkt': (.text+0x1470): undefined reference to `krb5_free_principal' /var/usr/bin/../lib/gcc/x86_64-redhat-linux/4.1.2/../../../../lib64/libssl.a(kssl.o): In function `kssl_cget_tkt': (.text+0x148a): undefined reference to `krb5_auth_con_free' /var/usr/bin/../lib/gcc/x86_64-redhat-linux/4.1.2/../../../../lib64/libssl.a(kssl.o): In function `kssl_cget_tkt': (.text+0x149c): undefined reference to `krb5_free_context' /var/usr/bin/../lib/gcc/x86_64-redhat-linux/4.1.2/../../../../lib64/libssl.a(kssl.o): In function `kssl_cget_tkt': (.text+0x14f1): undefined reference to `krb5_cc_default' /var/usr/bin/../lib/gcc/x86_64-redhat-linux/4.1.2/../../../../lib64/libssl.a(kssl.o): In function `kssl_cget_tkt': (.text+0x1511): undefined reference to `krb5_cc_get_principal' /var/usr/bin/../lib/gcc/x86_64-redhat-linux/4.1.2/../../../../lib64/libssl.a(kssl.o): In function `kssl_cget_tkt': (.text+0x1597): undefined reference to `krb5_get_credentials' /var/usr/bin/../lib/gcc/x86_64-redhat-linux/4.1.2/../../../../lib64/libssl.a(kssl.o): In function `kssl_cget_tkt': (.text+0x162e): undefined reference to `krb5_mk_req_extended' /var/usr/bin/../lib/gcc/x86_64-redhat-linux/4.1.2/../../../../lib64/libssl.a(kssl.o): In function `kssl_sget_tkt': (.text+0x1988): undefined reference to `krb5_auth_con_free' /var/usr/bin/../lib/gcc/x86_64-redhat-linux/4.1.2/../../../../lib64/libssl.a(kssl.o): In function `kssl_sget_tkt': (.text+0x19b0): undefined reference to `krb5_auth_con_init' /var/usr/bin/../lib/gcc/x86_64-redhat-linux/4.1.2/../../../../lib64/libssl.a(kssl.o): In function `kssl_sget_tkt': (.text+0x19e4): undefined reference to `krb5_kt_close' /var/usr/bin/../lib/gcc/x86_64-redhat-linux/4.1.2/../../../../lib64/libssl.a(kssl.o): In function `kssl_sget_tkt': (.text+0x19fa): undefined reference to `krb5_free_ticket' /var/usr/bin/../lib/gcc/x86_64-redhat-linux/4.1.2/../../../../lib64/libssl.a(kssl.o): In function `kssl_sget_tkt': (.text+0x1a10): undefined reference to `krb5_free_principal' /var/usr/bin/../lib/gcc/x86_64-redhat-linux/4.1.2/../../../../lib64/libssl.a(kssl.o): In function `kssl_sget_tkt': (.text+0x1a5c): undefined reference to `krb5_auth_con_getrcache' /var/usr/bin/../lib/gcc/x86_64-redhat-linux/4.1.2/../../../../lib64/libssl.a(kssl.o): In function `kssl_sget_tkt': (.text+0x1a90): undefined reference to `krb5_sname_to_principal' /var/usr/bin/../lib/gcc/x86_64-redhat-linux/4.1.2/../../../../lib64/libssl.a(kssl.o): In function `kssl_sget_tkt': (.text+0x1abe): undefined reference to `krb5_auth_con_setrcache' /var/usr/bin/../lib/gcc/x86_64-redhat-linux/4.1.2/../../../../lib64/libssl.a(kssl.o): In function `kssl_sget_tkt': (.text+0x1ae7): undefined reference to `krb5_kt_resolve' /var/usr/bin/../lib/gcc/x86_64-redhat-linux/4.1.2/../../../../lib64/libssl.a(kssl.o): In function `kssl_sget_tkt': (.text+0x1b51): undefined reference to `krb5_principal_compare' /var/usr/bin/../lib/gcc/x86_64-redhat-linux/4.1.2/../../../../lib64/libssl.a(kssl.o): In function `kssl_sget_tkt': (.text+0x1bf4): undefined reference to `krb5_init_context' /var/usr/bin/../lib/gcc/x86_64-redhat-linux/4.1.2/../../../../lib64/libssl.a(kssl.o): In function `kssl_sget_tkt': (.text+0x1c38): undefined reference to `krb5_get_server_rcache' /var/usr/bin/../lib/gcc/x86_64-redhat-linux/4.1.2/../../../../lib64/libssl.a(kssl.o): In function `kssl_sget_tkt': (.text+0x1cc9): undefined reference to `krb5_kt_default' /var/usr/bin/../lib/gcc/x86_64-redhat-linux/4.1.2/../../../../lib64/libssl.a(kssl.o): In function `kssl_sget_tkt': (.text+0x1d10): undefined reference to `krb5_kt_get_entry' /var/usr/bin/../lib/gcc/x86_64-redhat-linux/4.1.2/../../../../lib64/libssl.a(kssl.o): In function `kssl_sget_tkt': (.text+0x1d74): undefined reference to `krb5_decrypt_tkt_part' /var/usr/bin/../lib/gcc/x86_64-redhat-linux/4.1.2/../../../../lib64/libssl.a(kssl.o): In function `kssl_sget_tkt': (.text+0x1dac): undefined reference to `krb5_kt_free_entry' /var/usr/bin/../lib/gcc/x86_64-redhat-linux/4.1.2/../../../../lib64/libssl.a(kssl.o): In function `kssl_krb5_free_data_contents': (.text+0x203): undefined reference to `krb5_free_data_contents' /var/usr/bin/../lib/gcc/x86_64-redhat-linux/4.1.2/../../../../lib64/libcrypto.a(fips.o): In function `FIPSCHECK_verify': (.text+0x7fa): undefined reference to `dlopen' /var/usr/bin/../lib/gcc/x86_64-redhat-linux/4.1.2/../../../../lib64/libcrypto.a(fips.o): In function `FIPSCHECK_verify': (.text+0x80f): undefined reference to `dlsym' /var/usr/bin/../lib/gcc/x86_64-redhat-linux/4.1.2/../../../../lib64/libcrypto.a(fips.o): In function `FIPSCHECK_verify': (.text+0x821): undefined reference to `dladdr' /var/usr/bin/../lib/gcc/x86_64-redhat-linux/4.1.2/../../../../lib64/libcrypto.a(fips.o): In function `FIPSCHECK_verify': (.text+0x82d): undefined reference to `dlclose' /var/usr/bin/../lib/gcc/x86_64-redhat-linux/4.1.2/../../../../lib64/libcrypto.a(fips.o): In function `FIPSCHECK_verify': (.text+0x8a8): undefined reference to `dlclose' /var/usr/bin/../lib/gcc/x86_64-redhat-linux/4.1.2/../../../../lib64/libcrypto.a(dso_dlfcn.o): In function `dlfcn_bind_func': (.text+0x174): undefined reference to `dlsym' /var/usr/bin/../lib/gcc/x86_64-redhat-linux/4.1.2/../../../../lib64/libcrypto.a(dso_dlfcn.o): In function `dlfcn_bind_func': (.text+0x22c): undefined reference to `dlerror' /var/usr/bin/../lib/gcc/x86_64-redhat-linux/4.1.2/../../../../lib64/libcrypto.a(dso_dlfcn.o): In function `dlfcn_bind_var': (.text+0x2a4): undefined reference to `dlsym' /var/usr/bin/../lib/gcc/x86_64-redhat-linux/4.1.2/../../../../lib64/libcrypto.a(dso_dlfcn.o): In function `dlfcn_bind_var': (.text+0x35c): undefined reference to `dlerror' /var/usr/bin/../lib/gcc/x86_64-redhat-linux/4.1.2/../../../../lib64/libcrypto.a(dso_dlfcn.o): In function `dlfcn_unload': (.text+0x3bd): undefined reference to `dlclose' /var/usr/bin/../lib/gcc/x86_64-redhat-linux/4.1.2/../../../../lib64/libcrypto.a(dso_dlfcn.o): In function `dlfcn_load': (.text+0x472): undefined reference to `dlopen' /var/usr/bin/../lib/gcc/x86_64-redhat-linux/4.1.2/../../../../lib64/libcrypto.a(dso_dlfcn.o): In function `dlfcn_load': (.text+0x4dd): undefined reference to `dlclose' /var/usr/bin/../lib/gcc/x86_64-redhat-linux/4.1.2/../../../../lib64/libcrypto.a(dso_dlfcn.o): In function `dlfcn_load': (.text+0x507): undefined reference to `dlerror' collect2: ld returned 1 exit status make: *** [bedGraphToBigWig] Error 1 _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
