# $Id$

include $(srcdir)/../core/Makefile.blast.lib

ASN_DEP = seq xnetblast scoremat blastdb

SRC_CXX = blast_aux \
blast_options_cxx \
blast_options_local_priv \
blast_options_builder \
blast_setup_cxx \
blast_seqalign \
blast_options_handle \
blast_nucl_options \
disc_nucl_options \
blast_prot_options \
psiblast_options \
blast_rps_options \
blastx_options \
tblastx_options \
tblastn_options \
rpstblastn_options \
phiblast_nucl_options \
phiblast_prot_options \
pssm_engine \
local_blast \
remote_blast \
seqinfosrc_seqvec \
seqinfosrc_seqdb \
seqinfosrc_bioseq \
seqsrc_multiseq \
seqsrc_seqdb \
seqsrc_query_factory \
bl2seq \
blast_objmgr_tools \
repeats_filter_cxx \
blast_mtlock \
psibl2seq \
local_db_adapter \
psiblast \
psiblast_impl \
psiblast_iteration \
psi_pssm_input \
msa_pssm_input \
psiblast_aux_priv \
blast_aux_priv \
blast_advprot_options \
blastp_kmer_options \
version \
dust_filter \
rps_aux \
search_strategy \
setup_factory \
prelim_stage \
traceback_stage \
uniform_search \
local_search \
blast_results \
remote_search \
query_data \
objmgr_query_data \
objmgrfree_query_data \
bioseq_extract_data_priv \
effsearchspace_calc \
blast_seqinfosrc_aux \
blast_dbindex \
split_query_cxx \
split_query_aux_priv \
split_query_blk \
winmask_filter \
subj_ranges_set \
rpsblast_local \
seedtop \
cdd_pssm_input \
deltablast_options \
deltablast \
magicblast_options \
magicblast \
blast_node \
blast_usage_report

SRC  = $(SRC_C:%=.core_%) $(SRC_CXX)

LIB = xblast

DLL_LIB = $(BLAST_LDEP) $(SOBJMGR_LIBS)

CFLAGS   = $(FAST_CFLAGS) 
CPPFLAGS = -DNCBI_MODULE=BLAST $(ORIG_CPPFLAGS)
# Strict gcc flags
#CFLAGS  = $(FAST_CFLAGS)  -pedantic -std=c99 -Wall -W -Wstrict-prototypes -Wmissing-prototypes -Wmissing-declarations -Wundef -Winline -Wno-parentheses
CXXFLAGS = $(FAST_CXXFLAGS) 
LDFLAGS  = $(FAST_LDFLAGS) 

LIBS = $(BLAST_THIRD_PARTY_LIBS) $(ORIG_LIBS)

.core_%.c: # $(srcdir)/../core/%.c
	echo '#include "$(srcdir)/../core/$*.c"' > $@

WATCHERS = morgulis boratyng camacho fongah2

USES_LIBRARIES =  \
    composition_adjustment connect tables xalgoblastdbindex xalgodustmask \
    xalgowinmask xnetblastcli