diff --git a/src/asm_pm/asmpm.mk b/src/asm_pm/asmpm.mk index 553db66..cfa258f 100644 --- a/src/asm_pm/asmpm.mk +++ b/src/asm_pm/asmpm.mk @@ -11,7 +11,7 @@ SOURCES := asmpm.c find_mem.c km_chain.c blockwise_edlib.c daligner.c align.c h SRC_INCDIRS := . TGT_LDFLAGS := -L${TARGET_DIR} -TGT_LDLIBS := -lontcns +TGT_LDLIBS := -lontcns -lz -lpthread TGT_PREREQS := libontcns.a SUBMAKEFILES := diff --git a/src/consensus/main.mk b/src/consensus/main.mk index a4bbb05..df1b004 100644 --- a/src/consensus/main.mk +++ b/src/consensus/main.mk @@ -11,7 +11,7 @@ SOURCES := main.c read_id_pool.c cns_options.c error_estimate.c overlaps_pool.c SRC_INCDIRS := . TGT_LDFLAGS := -L${TARGET_DIR} -TGT_LDLIBS := -lontcns +TGT_LDLIBS := -lontcns -lz -lpthread -lstdc++ -lm TGT_PREREQS := libontcns.a SUBMAKEFILES := diff --git a/src/ctg_cns/main.mk b/src/ctg_cns/main.mk index 5f33d1d..5351176 100644 --- a/src/ctg_cns/main.mk +++ b/src/ctg_cns/main.mk @@ -19,7 +19,7 @@ SOURCES := main.c \ SRC_INCDIRS := . TGT_LDFLAGS := -L${TARGET_DIR} -TGT_LDLIBS := -lontcns +TGT_LDLIBS := -lontcns -lz -lpthread -lstdc++ TGT_PREREQS := libontcns.a SUBMAKEFILES := diff --git a/src/ctg_cns/pm4_main.mk b/src/ctg_cns/pm4_main.mk index a020fb3..04c17c5 100644 --- a/src/ctg_cns/pm4_main.mk +++ b/src/ctg_cns/pm4_main.mk @@ -11,7 +11,7 @@ SOURCES := pm4_main.c pm4.c SRC_INCDIRS := . TGT_LDFLAGS := -L${TARGET_DIR} -TGT_LDLIBS := -lontcns +TGT_LDLIBS := -lontcns -lpthread TGT_PREREQS := libontcns.a SUBMAKEFILES := diff --git a/src/ctgpm/ctgpm.mk b/src/ctgpm/ctgpm.mk index 8b1a908..b66d523 100644 --- a/src/ctgpm/ctgpm.mk +++ b/src/ctgpm/ctgpm.mk @@ -11,7 +11,7 @@ SOURCES := ctgpm_main.c ctgpm.c SRC_INCDIRS := . TGT_LDFLAGS := -L${TARGET_DIR} -TGT_LDLIBS := -lontcns +TGT_LDLIBS := -lontcns -lz -lpthread -lstdc++ -lm TGT_PREREQS := libontcns.a SUBMAKEFILES := diff --git a/src/ctgpm/fix_can_info.mk b/src/ctgpm/fix_can_info.mk index 4221cb1..7c7fecf 100644 --- a/src/ctgpm/fix_can_info.mk +++ b/src/ctgpm/fix_can_info.mk @@ -11,7 +11,7 @@ SOURCES := fix_can_info.c split_ctgs.c SRC_INCDIRS := . TGT_LDFLAGS := -L${TARGET_DIR} -TGT_LDLIBS := -lontcns +TGT_LDLIBS := -lontcns -lz TGT_PREREQS := libontcns.a SUBMAKEFILES := diff --git a/src/ctgpm/split_ctgs.mk b/src/ctgpm/split_ctgs.mk index de38c5b..807d3db 100644 --- a/src/ctgpm/split_ctgs.mk +++ b/src/ctgpm/split_ctgs.mk @@ -11,7 +11,7 @@ SOURCES := split_ctgs.c split_ctgs_main.c SRC_INCDIRS := . TGT_LDFLAGS := -L${TARGET_DIR} -TGT_LDLIBS := -lontcns +TGT_LDLIBS := -lontcns -lz TGT_PREREQS := libontcns.a SUBMAKEFILES := diff --git a/src/extract_sequences/extract_sequences.mk b/src/extract_sequences/extract_sequences.mk index 266ace6..545ce49 100644 --- a/src/extract_sequences/extract_sequences.mk +++ b/src/extract_sequences/extract_sequences.mk @@ -11,7 +11,7 @@ SOURCES := extract_sequences.c SRC_INCDIRS := . TGT_LDFLAGS := -L${TARGET_DIR} -TGT_LDLIBS := -lontcns +TGT_LDLIBS := -lontcns -lz TGT_PREREQS := libontcns.a SUBMAKEFILES := diff --git a/src/fsa/assemble.mk b/src/fsa/assemble.mk index 4713432..5804a94 100644 --- a/src/fsa/assemble.mk +++ b/src/fsa/assemble.mk @@ -9,10 +9,10 @@ TARGET := fsa_assemble SOURCES := ./prog/fsa_assemble.cpp assembly.cpp graph.cpp string_graph.cpp path_graph.cpp SRC_INCDIRS := . -TGT_CXXFLAGS := -U_GLIBCXX_PARALLEL -std=c++11 -Wall -O3 -D_FILE_OFFSET_BITS=64 +TGT_CXXFLAGS := -U_GLIBCXX_PARALLEL -std=c++11 -Wall -O3 -D_FILE_OFFSET_BITS=64 ${CXXFLAGS} TGT_LDFLAGS := -L${TARGET_DIR} -TGT_LDLIBS := -lfsa +TGT_LDLIBS := -lfsa -lz -lpthread TGT_PREREQS := libfsa.a SUBMAKEFILES := diff --git a/src/fsa/bridge.mk b/src/fsa/bridge.mk index dbc50dc..2a62ac3 100644 --- a/src/fsa/bridge.mk +++ b/src/fsa/bridge.mk @@ -9,10 +9,10 @@ TARGET := fsa_ctg_bridge SOURCES := ./prog/fsa_ctg_bridge.cpp contig_bridge.cpp contig_graph.cpp contig_link.cpp contig_link_store.cpp SRC_INCDIRS := . -TGT_CXXFLAGS := -U_GLIBCXX_PARALLEL -std=c++11 -Wall -O3 -D_FILE_OFFSET_BITS=64 +TGT_CXXFLAGS := -U_GLIBCXX_PARALLEL -std=c++11 -Wall -O3 -D_FILE_OFFSET_BITS=64 ${CXXFLAGS} TGT_LDFLAGS := -L${TARGET_DIR} -TGT_LDLIBS := -lfsa +TGT_LDLIBS := -lfsa -lz -lpthread TGT_PREREQS := libfsa.a SUBMAKEFILES := diff --git a/src/fsa/filter.mk b/src/fsa/filter.mk index cb13912..4eb7e59 100644 --- a/src/fsa/filter.mk +++ b/src/fsa/filter.mk @@ -9,10 +9,10 @@ TARGET := fsa_ol_filter SOURCES := ./prog/fsa_ol_filter.cpp SRC_INCDIRS := . -TGT_CXXFLAGS := -U_GLIBCXX_PARALLEL -std=c++11 -Wall -O3 -D_FILE_OFFSET_BITS=64 +TGT_CXXFLAGS := -U_GLIBCXX_PARALLEL -std=c++11 -Wall -O3 -D_FILE_OFFSET_BITS=64 ${CXXFLAGS} TGT_LDFLAGS := -L${TARGET_DIR} -TGT_LDLIBS := -lfsa +TGT_LDLIBS := -lfsa -lz -lpthread TGT_PREREQS := libfsa.a SUBMAKEFILES := diff --git a/src/fsa/fsa.mk b/src/fsa/fsa.mk index 267ccad..3dfe395 100644 --- a/src/fsa/fsa.mk +++ b/src/fsa/fsa.mk @@ -10,11 +10,11 @@ SOURCES := argument_parser.cpp logger.cpp overlap.cpp read_store.cpp sequence.c utility.cpp file_io.cpp seq_io.cpp overlap_store.cpp \ ./simple_align.cpp overlap_filter.cpp overlap_stat.cpp overlap_trim.cpp -TGT_CXXFLAGS := -U_GLIBCXX_PARALLEL -std=c++11 -Wall -O3 -D_FILE_OFFSET_BITS=64 -SRC_INCDIRS := . +TGT_CXXFLAGS := ${TGT_CXXFLAGS} -U_GLIBCXX_PARALLEL -std=c++11 -Wall -O3 -D_FILE_OFFSET_BITS=64 ${CXXFLAGS} +SRC_INCDIRS := . -I${PREFIX}/include TGT_LDFLAGS := -L${TARGET_DIR} -TGT_LDLIBS := -lontcns +TGT_LDLIBS := -lontcns -lz TGT_PREREQS := libontcns.a SUBMAKEFILES := diff --git a/src/fsa/rd_extract.mk b/src/fsa/rd_extract.mk index d23c3fe..2ba2e44 100644 --- a/src/fsa/rd_extract.mk +++ b/src/fsa/rd_extract.mk @@ -9,10 +9,10 @@ TARGET := fsa_rd_extract SOURCES := ./prog/fsa_rd_extract.cpp read_extract.cpp SRC_INCDIRS := . -TGT_CXXFLAGS := -U_GLIBCXX_PARALLEL -std=c++11 -Wall -O3 -D_FILE_OFFSET_BITS=64 +TGT_CXXFLAGS := -U_GLIBCXX_PARALLEL -std=c++11 -Wall -O3 -D_FILE_OFFSET_BITS=64 ${CXXFLAGS} TGT_LDFLAGS := -L${TARGET_DIR} -TGT_LDLIBS := -lfsa +TGT_LDLIBS := -lfsa -lz TGT_PREREQS := libfsa.a SUBMAKEFILES := diff --git a/src/fsa/rd_stat.mk b/src/fsa/rd_stat.mk index 78e04c6..730cee8 100644 --- a/src/fsa/rd_stat.mk +++ b/src/fsa/rd_stat.mk @@ -9,10 +9,10 @@ TARGET := fsa_rd_stat SOURCES := ./prog/fsa_rd_stat.cpp read_stat.cpp SRC_INCDIRS := . -TGT_CXXFLAGS := -U_GLIBCXX_PARALLEL -std=c++11 -Wall -O3 -D_FILE_OFFSET_BITS=64 +TGT_CXXFLAGS := -U_GLIBCXX_PARALLEL -std=c++11 -Wall -O3 -D_FILE_OFFSET_BITS=64 ${CXXFLAGS} TGT_LDFLAGS := -L${TARGET_DIR} -TGT_LDLIBS := -lfsa +TGT_LDLIBS := -lfsa -lz TGT_PREREQS := libfsa.a SUBMAKEFILES := diff --git a/src/fsa/rd_tools.mk b/src/fsa/rd_tools.mk index 1e43a27..ac307b6 100644 --- a/src/fsa/rd_tools.mk +++ b/src/fsa/rd_tools.mk @@ -9,10 +9,10 @@ TARGET := fsa_rd_tools SOURCES := ./prog/fsa_rd_tools.cpp read_tools.cpp SRC_INCDIRS := . -TGT_CXXFLAGS := -U_GLIBCXX_PARALLEL -std=c++11 -Wall -O3 -D_FILE_OFFSET_BITS=64 +TGT_CXXFLAGS := -U_GLIBCXX_PARALLEL -std=c++11 -Wall -O3 -D_FILE_OFFSET_BITS=64 ${CXXFLAGS} TGT_LDFLAGS := -L${TARGET_DIR} -TGT_LDLIBS := -lfsa +TGT_LDLIBS := -lfsa -lz TGT_PREREQS := libfsa.a SUBMAKEFILES := diff --git a/src/makedb/main.mk b/src/makedb/main.mk index 75b574c..323fac3 100644 --- a/src/makedb/main.mk +++ b/src/makedb/main.mk @@ -11,7 +11,7 @@ SOURCES := main.c SRC_INCDIRS := . TGT_LDFLAGS := -L${TARGET_DIR} -TGT_LDLIBS := -lontcns +TGT_LDLIBS := -lontcns -lz TGT_PREREQS := libontcns.a SUBMAKEFILES := diff --git a/src/pairwise_mapping/main.mk b/src/pairwise_mapping/main.mk index 479cc10..8248324 100644 --- a/src/pairwise_mapping/main.mk +++ b/src/pairwise_mapping/main.mk @@ -11,7 +11,7 @@ SOURCES := main.c \ SRC_INCDIRS := . TGT_LDFLAGS := -L${TARGET_DIR} -TGT_LDLIBS := -lontcns +TGT_LDLIBS := -lontcns -lz -lpthread TGT_PREREQS := libontcns.a SUBMAKEFILES := diff --git a/src/partition_candidates/main.mk b/src/partition_candidates/main.mk index 19c70f0..0581c1f 100644 --- a/src/partition_candidates/main.mk +++ b/src/partition_candidates/main.mk @@ -11,7 +11,7 @@ SOURCES := main.c pcan_options.c pcan.c SRC_INCDIRS := . TGT_LDFLAGS := -L${TARGET_DIR} -TGT_LDLIBS := -lontcns +TGT_LDLIBS := -lontcns -lpthread TGT_PREREQS := libontcns.a SUBMAKEFILES := diff --git a/src/partition_m4/main.mk b/src/partition_m4/main.mk index 6265052..805ff27 100644 --- a/src/partition_m4/main.mk +++ b/src/partition_m4/main.mk @@ -11,7 +11,7 @@ SOURCES := main.c pm4_options.c pm4.c pm4_aux.c SRC_INCDIRS := . TGT_LDFLAGS := -L${TARGET_DIR} -TGT_LDLIBS := -lontcns +TGT_LDLIBS := -lontcns -lpthread TGT_PREREQS := libontcns.a SUBMAKEFILES := diff --git a/src/pm_one_volume/main.mk b/src/pm_one_volume/main.mk index 1588aad..0dc977a 100644 --- a/src/pm_one_volume/main.mk +++ b/src/pm_one_volume/main.mk @@ -11,7 +11,7 @@ SOURCES := main.c pm_worker.c SRC_INCDIRS := . TGT_LDFLAGS := -L${TARGET_DIR} -TGT_LDLIBS := -lontcns +TGT_LDLIBS := -lontcns -lz -lpthread TGT_PREREQS := libontcns.a SUBMAKEFILES := diff --git a/src/preprocess_raw_reads/main.mk b/src/preprocess_raw_reads/main.mk index 125b064..ed764f0 100644 --- a/src/preprocess_raw_reads/main.mk +++ b/src/preprocess_raw_reads/main.mk @@ -11,7 +11,7 @@ SOURCES := main.c truncate_end_spaces.cpp SRC_INCDIRS := . TGT_LDFLAGS := -L${TARGET_DIR} -TGT_LDLIBS := -lontcns +TGT_LDLIBS := -lontcns -lz TGT_PREREQS := libontcns.a SUBMAKEFILES := diff --git a/src/reference_mapping/main.mk b/src/reference_mapping/main.mk index 96530b3..391ee85 100644 --- a/src/reference_mapping/main.mk +++ b/src/reference_mapping/main.mk @@ -11,7 +11,7 @@ SOURCES := main.c rm_worker.c SRC_INCDIRS := . TGT_LDFLAGS := -L${TARGET_DIR} -TGT_LDLIBS := -lontcns +TGT_LDLIBS := -lontcns -lz -lpthread -lstdc++ TGT_PREREQS := libontcns.a SUBMAKEFILES := diff --git a/src/reference_mapping/rm_one_vol_main.mk b/src/reference_mapping/rm_one_vol_main.mk index 414b4b0..a625625 100644 --- a/src/reference_mapping/rm_one_vol_main.mk +++ b/src/reference_mapping/rm_one_vol_main.mk @@ -11,7 +11,7 @@ SOURCES := rm_one_vol_main.c rm_worker.c SRC_INCDIRS := . TGT_LDFLAGS := -L${TARGET_DIR} -TGT_LDLIBS := -lontcns +TGT_LDLIBS := -lontcns -lz -lpthread -lstdc++ TGT_PREREQS := libontcns.a SUBMAKEFILES := diff --git a/src/renumber_sequences/main.mk b/src/renumber_sequences/main.mk index 5e97671..dc75459 100644 --- a/src/renumber_sequences/main.mk +++ b/src/renumber_sequences/main.mk @@ -11,7 +11,7 @@ SOURCES := main.c \ SRC_INCDIRS := . TGT_LDFLAGS := -L${TARGET_DIR} -TGT_LDLIBS := -lontcns +TGT_LDLIBS := -lontcns -lz TGT_PREREQS := libontcns.a SUBMAKEFILES := diff --git a/src/reorder_cns_reads/main.mk b/src/reorder_cns_reads/main.mk index 9db89aa..605f012 100644 --- a/src/reorder_cns_reads/main.mk +++ b/src/reorder_cns_reads/main.mk @@ -11,7 +11,7 @@ SOURCES := main.c \ SRC_INCDIRS := . TGT_LDFLAGS := -L${TARGET_DIR} -TGT_LDLIBS := -lontcns +TGT_LDLIBS := -lontcns -lz TGT_PREREQS := libontcns.a SUBMAKEFILES := diff --git a/src/sequence_length_stats/main.mk b/src/sequence_length_stats/main.mk index 17ffa45..e673ffa 100644 --- a/src/sequence_length_stats/main.mk +++ b/src/sequence_length_stats/main.mk @@ -11,7 +11,7 @@ SOURCES := main.c \ SRC_INCDIRS := . TGT_LDFLAGS := -L${TARGET_DIR} -TGT_LDLIBS := -lontcns +TGT_LDLIBS := -lontcns -lz TGT_PREREQS := libontcns.a SUBMAKEFILES := diff --git a/src/split_long_reads/main.mk b/src/split_long_reads/main.mk index 713aa5f..7f24439 100644 --- a/src/split_long_reads/main.mk +++ b/src/split_long_reads/main.mk @@ -11,7 +11,7 @@ SOURCES := main.c \ SRC_INCDIRS := . TGT_LDFLAGS := -L${TARGET_DIR} -TGT_LDLIBS := -lontcns +TGT_LDLIBS := -lontcns -lz TGT_PREREQS := libontcns.a SUBMAKEFILES := diff --git a/src/test/main.mk b/src/test/main.mk index b8503ef..99295a7 100644 --- a/src/test/main.mk +++ b/src/test/main.mk @@ -11,7 +11,7 @@ SOURCES := main.c \ SRC_INCDIRS := . TGT_LDFLAGS := -L${TARGET_DIR} -TGT_LDLIBS := -lontcns +TGT_LDLIBS := -lontcns -lz TGT_PREREQS := libontcns.a SUBMAKEFILES := diff --git a/src/trim_bases/extract_trimmed_reads.mk b/src/trim_bases/extract_trimmed_reads.mk index 8f493f1..4d06513 100644 --- a/src/trim_bases/extract_trimmed_reads.mk +++ b/src/trim_bases/extract_trimmed_reads.mk @@ -10,8 +10,8 @@ SOURCES := extract_trimmed_reads.c largest_cover_range.c range_list.c detect_ch SRC_INCDIRS := . +TGT_LDLIBS := -lontcns -lz -lpthread TGT_LDFLAGS := -L${TARGET_DIR} -TGT_LDLIBS := -lontcns TGT_PREREQS := libontcns.a SUBMAKEFILES := diff --git a/src/trim_bases/largest_cover_range.mk b/src/trim_bases/largest_cover_range.mk index 17134bf..9e89659 100644 --- a/src/trim_bases/largest_cover_range.mk +++ b/src/trim_bases/largest_cover_range.mk @@ -22,7 +22,7 @@ SOURCES := pm4_aux.c \ SRC_INCDIRS := . TGT_LDFLAGS := -L${TARGET_DIR} -TGT_LDLIBS := -lontcns +TGT_LDLIBS := -lontcns -lpthread TGT_PREREQS := libontcns.a SUBMAKEFILES := diff --git a/src/trim_bases/order_results.mk b/src/trim_bases/order_results.mk index 12bf718..4dc5c8d 100644 --- a/src/trim_bases/order_results.mk +++ b/src/trim_bases/order_results.mk @@ -11,7 +11,7 @@ SOURCES := order_results.c SRC_INCDIRS := . TGT_LDFLAGS := -L${TARGET_DIR} -TGT_LDLIBS := -lontcns +TGT_LDLIBS := -lontcns -lz TGT_PREREQS := libontcns.a SUBMAKEFILES := diff --git a/src/trim_bases/pm4.mk b/src/trim_bases/pm4.mk index d007c96..778a4d2 100644 --- a/src/trim_bases/pm4.mk +++ b/src/trim_bases/pm4.mk @@ -11,7 +11,7 @@ SOURCES := pm4_aux.c pm4_main.c SRC_INCDIRS := . TGT_LDFLAGS := -L${TARGET_DIR} -TGT_LDLIBS := -lontcns +TGT_LDLIBS := -lontcns -lpthread TGT_PREREQS := libontcns.a SUBMAKEFILES := diff --git a/src/trim_bases/trim_bases.mk b/src/trim_bases/trim_bases.mk index 181e41c..c04184c 100644 --- a/src/trim_bases/trim_bases.mk +++ b/src/trim_bases/trim_bases.mk @@ -11,7 +11,7 @@ SOURCES := trim_bases.c SRC_INCDIRS := . TGT_LDFLAGS := -L${TARGET_DIR} -TGT_LDLIBS := -lontcns +TGT_LDLIBS := -lontcns -lz TGT_PREREQS := libontcns.a SUBMAKEFILES := diff --git a/src/trim_bases_accurate/largest_cover_range.mk b/src/trim_bases_accurate/largest_cover_range.mk index ea483ff..1538cc2 100644 --- a/src/trim_bases_accurate/largest_cover_range.mk +++ b/src/trim_bases_accurate/largest_cover_range.mk @@ -21,7 +21,7 @@ SOURCES := pm4_aux.c \ SRC_INCDIRS := . TGT_LDFLAGS := -L${TARGET_DIR} -TGT_LDLIBS := -lontcns +TGT_LDLIBS := -lontcns -lz -lpthread -lstdc++ -lm TGT_PREREQS := libontcns.a SUBMAKEFILES := diff --git a/src/trim_bases_accurate/pm4.mk b/src/trim_bases_accurate/pm4.mk index 0d9d277..dcba7cf 100644 --- a/src/trim_bases_accurate/pm4.mk +++ b/src/trim_bases_accurate/pm4.mk @@ -11,7 +11,7 @@ SOURCES := pm4_aux.c pm4_main.c SRC_INCDIRS := . TGT_LDFLAGS := -L${TARGET_DIR} -TGT_LDLIBS := -lontcns +TGT_LDLIBS := -lontcns -lpthread TGT_PREREQS := libontcns.a SUBMAKEFILES := diff --git a/src/trim_bases_accurate/trim_bases.mk b/src/trim_bases_accurate/trim_bases.mk index 5c2334c..225ff00 100644 --- a/src/trim_bases_accurate/trim_bases.mk +++ b/src/trim_bases_accurate/trim_bases.mk @@ -11,7 +11,7 @@ SOURCES := trim_bases.c SRC_INCDIRS := . TGT_LDFLAGS := -L${TARGET_DIR} -TGT_LDLIBS := -lontcns +TGT_LDLIBS := -lontcns -lz TGT_PREREQS := libontcns.a SUBMAKEFILES := diff --git a/src/trim_bases_accurate0/largest_cover_range.mk b/src/trim_bases_accurate0/largest_cover_range.mk index f76048f..65d8d92 100644 --- a/src/trim_bases_accurate0/largest_cover_range.mk +++ b/src/trim_bases_accurate0/largest_cover_range.mk @@ -21,7 +21,7 @@ SOURCES := pm4_aux.c \ SRC_INCDIRS := . TGT_LDFLAGS := -L${TARGET_DIR} -TGT_LDLIBS := -lontcns +TGT_LDLIBS := -lontcns -lz -lpthread -lstdc++ -lm TGT_PREREQS := libontcns.a SUBMAKEFILES := diff --git a/src/trim_bases_accurate0/pm4.mk b/src/trim_bases_accurate0/pm4.mk index df2e71b..b56e887 100644 --- a/src/trim_bases_accurate0/pm4.mk +++ b/src/trim_bases_accurate0/pm4.mk @@ -11,7 +11,7 @@ SOURCES := pm4_aux.c pm4_main.c SRC_INCDIRS := . TGT_LDFLAGS := -L${TARGET_DIR} -TGT_LDLIBS := -lontcns +TGT_LDLIBS := -lontcns -lpthread TGT_PREREQS := libontcns.a SUBMAKEFILES := diff --git a/src/trim_bases_accurate0/trim_bases.mk b/src/trim_bases_accurate0/trim_bases.mk index e784f50..22dc6ca 100644 --- a/src/trim_bases_accurate0/trim_bases.mk +++ b/src/trim_bases_accurate0/trim_bases.mk @@ -11,7 +11,7 @@ SOURCES := trim_bases.c SRC_INCDIRS := . TGT_LDFLAGS := -L${TARGET_DIR} -TGT_LDLIBS := -lontcns +TGT_LDLIBS := -lontcns -lz TGT_PREREQS := libontcns.a SUBMAKEFILES := diff --git a/tool/main.mk b/tool/main.mk index 543b50e..09d830f 100644 --- a/tool/main.mk +++ b/tool/main.mk @@ -9,7 +9,7 @@ ${TARGET_DIR}/pigz: ${TARGET_DIR}/../pigz-2.4/pigz ${TARGET_DIR}/../pigz-2.4/pigz: ../tool/pigz-2.4.tar.gz tar -xzf ../tool/pigz-2.4.tar.gz -C ${TARGET_DIR}/.. || exit 255 - cd ${TARGET_DIR}/../pigz-2.4 && make + cd ${TARGET_DIR}/../pigz-2.4 && make CC=${CC} LDFLAGS="${LDFLAGS}" clean: rm -f ${TARGET_DIR}/pigz