modified: SpatialOmicsCoord.py
[GalaxyCodeBases.git] / c_cpp / etc / jellyfish / Makefile.in
blobdc63995b6290dfb5d6a4df3d02de7ac6b25b51fd
1 # Makefile.in generated by automake 1.11 from Makefile.am.
2 # @configure_input@
4 # Copyright (C) 1994, 1995, 1996, 1997, 1998, 1999, 2000, 2001, 2002,
5 # 2003, 2004, 2005, 2006, 2007, 2008, 2009 Free Software Foundation,
6 # Inc.
7 # This Makefile.in is free software; the Free Software Foundation
8 # gives unlimited permission to copy and/or distribute it,
9 # with or without modifications, as long as this notice is preserved.
11 # This program is distributed in the hope that it will be useful,
12 # but WITHOUT ANY WARRANTY, to the extent permitted by law; without
13 # even the implied warranty of MERCHANTABILITY or FITNESS FOR A
14 # PARTICULAR PURPOSE.
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424 ACLOCAL_AMFLAGS = -I m4
425 EXTRA_DIST = m4/gnulib-cache.m4 doc/jellyfish.pdf doc/jellyfish.man \
426 README LICENSE HalfLICENSE jellyfish/cite_cmdline.hpp \
427 jellyfish/query_cmdline.hpp jellyfish/hash_merge_cmdline.hpp \
428 jellyfish/histo_main_cmdline.hpp \
429 jellyfish/stats_main_cmdline.hpp \
430 jellyfish/histo_fastq_main_cmdline.hpp \
431 jellyfish/dump_fastq_main_cmdline.hpp \
432 jellyfish/count_main_cmdline.hpp \
433 jellyfish/hash_fastq_merge_cmdline.hpp \
434 jellyfish/dump_main_cmdline.hpp \
435 jellyfish/double_fifo_input.hpp \
436 jellyfish/simple_growing_array.hpp jellyfish/backtrace.hpp \
437 jellyfish/noop_dumper.hpp jellyfish/yaggo.hpp \
438 jellyfish/fstream_default.hpp jellyfish/randomc.h \
439 jellyfish/generate_sequence_cmdline.hpp $(TESTS) $(GTEST_SRC)
440 man1_MANS = doc/jellyfish.man
441 pkgconfigdir = $(libdir)/pkgconfig
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446 lib_LTLIBRARIES = libjellyfish.la
448 ########################################
449 # Build Jellyfish the exec
450 ########################################
451 bin_jellyfish_SOURCES = jellyfish/jellyfish.cc jellyfish/stats_main.cc \
452 jellyfish/hash_merge.cc jellyfish/storage.cc jellyfish/misc.cc \
453 jellyfish/err.cc jellyfish/mer_counter.cc jellyfish/histo_main.cc \
454 jellyfish/dump_main.cc jellyfish/time.cc jellyfish/thread_exec.cc \
455 jellyfish/query_main.cc jellyfish/square_binary_matrix.cc \
456 jellyfish/dump_fastq_main.cc jellyfish/histo_fastq_main.cc \
457 jellyfish/cite.cc jellyfish/parse_dna.cc jellyfish/file_parser.cc \
458 jellyfish/parse_quake.cc jellyfish/parse_qual_dna.cc \
459 jellyfish/sequence_parser.cc jellyfish/seq_qual_parser.cc \
460 jellyfish/half.cpp jellyfish/hash_fastq_merge.cc jellyfish/dbg.cc \
461 jellyfish/mapped_file.cc jellyfish/backtrace.cc jellyfish/floats.cc \
462 jellyfish/allocators_mmap.cc jellyfish/yaggo.cpp
465 ########################################
466 # Build Jellyfish the shared library
467 ########################################
468 libjellyfish_la_LDFLAGS = -version-info 1:0:0
469 libjellyfish_la_SOURCES = jellyfish/square_binary_matrix.cc \
470 jellyfish/err.cc jellyfish/misc.cc \
471 jellyfish/storage.cc \
472 jellyfish/thread_exec.cc jellyfish/time.cc \
473 jellyfish/file_parser.cc \
474 jellyfish/read_parser.cc \
475 jellyfish/parse_read.cc jellyfish/half.cpp \
476 jellyfish/mapped_file.cc \
477 jellyfish/parse_dna.cc \
478 jellyfish/parse_quake.cc \
479 jellyfish/parse_qual_dna.cc \
480 jellyfish/sequence_parser.cc \
481 jellyfish/seq_qual_parser.cc \
482 jellyfish/backtrace.cc jellyfish/floats.cc \
483 jellyfish/dbg.cc \
484 jellyfish/allocators_mmap.cc
486 libjellyfish_la_CPPFLAGS = $(AM_CPPFLAGS)
487 library_includedir = $(includedir)/jellyfish-@PACKAGE_VERSION@/jellyfish
488 library_include_HEADERS = jellyfish/allocators_malloc.hpp \
489 jellyfish/allocators_mmap.hpp \
490 jellyfish/allocators_shm.hpp jellyfish/atomic_gcc.hpp \
491 jellyfish/compacted_dumper.hpp \
492 jellyfish/compacted_hash.hpp \
493 jellyfish/concurrent_queues.hpp \
494 jellyfish/direct_indexing_array.hpp \
495 jellyfish/direct_sorted_dumper.hpp jellyfish/divisor.hpp \
496 jellyfish/dumper.hpp jellyfish/hash_function.hpp \
497 jellyfish/hash.hpp jellyfish/heap.hpp \
498 jellyfish/invertible_hash_array.hpp \
499 jellyfish/locking_hash_counters.hpp \
500 jellyfish/locks_pthread.hpp jellyfish/mapped_file.hpp \
501 jellyfish/mer_counting.hpp jellyfish/err.hpp \
502 jellyfish/misc.hpp jellyfish/offsets_key_value.hpp \
503 jellyfish/reversible_hash_function.hpp \
504 jellyfish/sorted_dumper.hpp \
505 jellyfish/square_binary_matrix.hpp jellyfish/storage.hpp \
506 jellyfish/thread_exec.hpp jellyfish/time.hpp \
507 jellyfish/token_ring.hpp jellyfish/raw_dumper.hpp \
508 jellyfish/capped_integer.hpp \
509 jellyfish/aligned_values_array.hpp \
510 jellyfish/fastq_dumper.hpp jellyfish/floats.hpp \
511 jellyfish/circular_buffer.hpp jellyfish/counter.hpp \
512 jellyfish/parse_quake.hpp jellyfish/parse_dna.hpp \
513 jellyfish/parse_qual_dna.hpp jellyfish/file_parser.hpp \
514 jellyfish/sequence_parser.hpp \
515 jellyfish/seq_qual_parser.hpp \
516 jellyfish/double_fifo_input.hpp \
517 jellyfish/read_parser.hpp jellyfish/parse_read.hpp \
518 jellyfish/simple_growing_array.hpp jellyfish/toFloat.h \
519 jellyfish/eLut.h jellyfish/dbg.hpp jellyfish/half.h \
520 jellyfish/backtrace.hpp
523 ########################################
524 # Build tests
525 ########################################
526 bin_generate_sequence_SOURCES = jellyfish/generate_sequence.cc jellyfish/misc.cc \
527 jellyfish/mersenne.cpp \
528 jellyfish/square_binary_matrix.cc \
529 jellyfish/backtrace.cc jellyfish/dbg.cc jellyfish/time.cc
531 bin_test_double_fifo_input_SOURCES = jellyfish/test_double_fifo_input.cc \
532 jellyfish/parse_dna.cc jellyfish/file_parser.cc \
533 jellyfish/sequence_parser.cc \
534 jellyfish/backtrace.cc jellyfish/thread_exec.cc \
535 jellyfish/dbg.cc jellyfish/time.cc \
536 jellyfish/allocators_mmap.cc
538 bin_test_read_parser_SOURCES = jellyfish/test_read_parser.cc jellyfish/file_parser.cc \
539 jellyfish/read_parser.cc jellyfish/parse_read.cc \
540 jellyfish/dbg.cc jellyfish/backtrace.cc jellyfish/time.cc
543 ########################################
544 # Tests
545 ########################################
546 TEST_EXTENSIONS = .sh
547 SH_LOG_COMPILER = /bin/sh
548 AM_SH_LOG_FLAGS =
550 ########################################
551 # Unit tests
552 ########################################
553 TESTS = tests/generate_sequence.sh tests/serial_hashing.sh \
554 tests/parallel_hashing.sh tests/serial_direct_indexing.sh \
555 tests/parallel_direct_indexing.sh tests/raw_hash.sh \
556 tests/generate_fastq_sequence.sh \
557 tests/parallel_fastq_hashing.sh tests/multi_file.sh \
558 tests/multi_file_fastq.sh tests/from_stream.sh \
559 tests/parallel_fastq_sequence_hashing.sh \
560 tests/from_stream_fastq.sh tests/merge.sh tests/min_qual.sh \
561 tests/big.sh tests/parsers.sh unit_tests/unit_tests.sh
562 bin_test_offsets_key_value_SOURCES = unit_tests/test_offsets_key_value.cc
563 bin_test_offsets_key_value_CXXFLAGS = -I$(top_srcdir)/unit_tests/gtest/include -I$(top_srcdir)/unit_tests/gtest
564 bin_test_offsets_key_value_LDADD = libgtest_main.la
566 ##############################
567 # Gtest build.
568 ##############################
569 # Build rules for libraries.
570 check_LTLIBRARIES = libgtest.la libgtest_main.la
571 libgtest_la_SOURCES = unit_tests/gtest/src/gtest-all.cc
572 libgtest_main_la_SOURCES = unit_tests/gtest/src/gtest_main.cc
573 libgtest_main_la_LIBADD = libgtest.la
574 libgtest_la_CXXFLAGS = -I$(top_srcdir)/unit_tests/gtest \
575 -I$(top_srcdir)/unit_tests/gtest/include
577 libgtest_main_la_CXXFLAGS = -I$(top_srcdir)/unit_tests/gtest \
578 -I$(top_srcdir)/unit_tests/gtest/include
581 # gtest source files that we don't compile directly. They are
582 # #included by gtest-all.cc.
583 GTEST_SRC = unit_tests/gtest/src/gtest-death-test.cc \
584 unit_tests/gtest/src/gtest-filepath.cc \
585 unit_tests/gtest/src/gtest-internal-inl.h \
586 unit_tests/gtest/src/gtest-port.cc \
587 unit_tests/gtest/src/gtest-printers.cc \
588 unit_tests/gtest/src/gtest-test-part.cc \
589 unit_tests/gtest/src/gtest-typed-test.cc \
590 unit_tests/gtest/src/gtest.cc
593 # Headers, not installed
594 GTEST_I = unit_tests/gtest/include/gtest
595 noinst_HEADERS = $(GTEST_I)/gtest-death-test.h \
596 $(GTEST_I)/gtest-message.h \
597 $(GTEST_I)/gtest-param-test.h \
598 $(GTEST_I)/gtest-printers.h $(GTEST_I)/gtest-spi.h \
599 $(GTEST_I)/gtest-test-part.h \
600 $(GTEST_I)/gtest-typed-test.h $(GTEST_I)/gtest.h \
601 $(GTEST_I)/gtest_pred_impl.h $(GTEST_I)/gtest_prod.h \
602 $(GTEST_I)/internal/gtest-death-test-internal.h \
603 $(GTEST_I)/internal/gtest-filepath.h \
604 $(GTEST_I)/internal/gtest-internal.h \
605 $(GTEST_I)/internal/gtest-linked_ptr.h \
606 $(GTEST_I)/internal/gtest-param-util-generated.h \
607 $(GTEST_I)/internal/gtest-param-util.h \
608 $(GTEST_I)/internal/gtest-port.h \
609 $(GTEST_I)/internal/gtest-string.h \
610 $(GTEST_I)/internal/gtest-tuple.h \
611 $(GTEST_I)/internal/gtest-type-util.h
613 all: config.h
614 $(MAKE) $(AM_MAKEFLAGS) all-am
616 .SUFFIXES:
617 .SUFFIXES: .cc .cpp .html .lo .log .o .obj .sh .sh$(EXEEXT)
618 am--refresh:
620 $(srcdir)/Makefile.in: $(srcdir)/Makefile.am $(srcdir)/gtest.mk $(am__configure_deps)
621 @for dep in $?; do \
622 case '$(am__configure_deps)' in \
623 *$$dep*) \
624 echo ' cd $(srcdir) && $(AUTOMAKE) --foreign'; \
625 $(am__cd) $(srcdir) && $(AUTOMAKE) --foreign \
626 && exit 0; \
627 exit 1;; \
628 esac; \
629 done; \
630 echo ' cd $(top_srcdir) && $(AUTOMAKE) --foreign Makefile'; \
631 $(am__cd) $(top_srcdir) && \
632 $(AUTOMAKE) --foreign Makefile
633 .PRECIOUS: Makefile
634 Makefile: $(srcdir)/Makefile.in $(top_builddir)/config.status
635 @case '$?' in \
636 *config.status*) \
637 echo ' $(SHELL) ./config.status'; \
638 $(SHELL) ./config.status;; \
639 *) \
640 echo ' cd $(top_builddir) && $(SHELL) ./config.status $@ $(am__depfiles_maybe)'; \
641 cd $(top_builddir) && $(SHELL) ./config.status $@ $(am__depfiles_maybe);; \
642 esac;
644 $(top_builddir)/config.status: $(top_srcdir)/configure $(CONFIG_STATUS_DEPENDENCIES)
645 $(SHELL) ./config.status --recheck
647 $(top_srcdir)/configure: $(am__configure_deps)
648 $(am__cd) $(srcdir) && $(AUTOCONF)
649 $(ACLOCAL_M4): $(am__aclocal_m4_deps)
650 $(am__cd) $(srcdir) && $(ACLOCAL) $(ACLOCAL_AMFLAGS)
651 $(am__aclocal_m4_deps):
653 config.h: stamp-h1
654 @if test ! -f $@; then \
655 rm -f stamp-h1; \
656 $(MAKE) $(AM_MAKEFLAGS) stamp-h1; \
657 else :; fi
659 stamp-h1: $(srcdir)/config.h.in $(top_builddir)/config.status
660 @rm -f stamp-h1
661 cd $(top_builddir) && $(SHELL) ./config.status config.h
662 $(srcdir)/config.h.in: $(am__configure_deps)
663 ($(am__cd) $(top_srcdir) && $(AUTOHEADER))
664 rm -f stamp-h1
665 touch $@
667 distclean-hdr:
668 -rm -f config.h stamp-h1
669 tests/compat.sh: $(top_builddir)/config.status $(top_srcdir)/tests/compat.sh.in
670 cd $(top_builddir) && $(SHELL) ./config.status $@
671 jellyfish-1.1.pc: $(top_builddir)/config.status $(srcdir)/jellyfish-1.1.pc.in
672 cd $(top_builddir) && $(SHELL) ./config.status $@
674 clean-checkLTLIBRARIES:
675 -test -z "$(check_LTLIBRARIES)" || rm -f $(check_LTLIBRARIES)
676 @list='$(check_LTLIBRARIES)'; for p in $$list; do \
677 dir="`echo $$p | sed -e 's|/[^/]*$$||'`"; \
678 test "$$dir" != "$$p" || dir=.; \
679 echo "rm -f \"$${dir}/so_locations\""; \
680 rm -f "$${dir}/so_locations"; \
681 done
682 install-libLTLIBRARIES: $(lib_LTLIBRARIES)
683 @$(NORMAL_INSTALL)
684 test -z "$(libdir)" || $(MKDIR_P) "$(DESTDIR)$(libdir)"
685 @list='$(lib_LTLIBRARIES)'; test -n "$(libdir)" || list=; \
686 list2=; for p in $$list; do \
687 if test -f $$p; then \
688 list2="$$list2 $$p"; \
689 else :; fi; \
690 done; \
691 test -z "$$list2" || { \
692 echo " $(LIBTOOL) $(AM_LIBTOOLFLAGS) $(LIBTOOLFLAGS) --mode=install $(INSTALL) $(INSTALL_STRIP_FLAG) $$list2 '$(DESTDIR)$(libdir)'"; \
693 $(LIBTOOL) $(AM_LIBTOOLFLAGS) $(LIBTOOLFLAGS) --mode=install $(INSTALL) $(INSTALL_STRIP_FLAG) $$list2 "$(DESTDIR)$(libdir)"; \
696 uninstall-libLTLIBRARIES:
697 @$(NORMAL_UNINSTALL)
698 @list='$(lib_LTLIBRARIES)'; test -n "$(libdir)" || list=; \
699 for p in $$list; do \
700 $(am__strip_dir) \
701 echo " $(LIBTOOL) $(AM_LIBTOOLFLAGS) $(LIBTOOLFLAGS) --mode=uninstall rm -f '$(DESTDIR)$(libdir)/$$f'"; \
702 $(LIBTOOL) $(AM_LIBTOOLFLAGS) $(LIBTOOLFLAGS) --mode=uninstall rm -f "$(DESTDIR)$(libdir)/$$f"; \
703 done
705 clean-libLTLIBRARIES:
706 -test -z "$(lib_LTLIBRARIES)" || rm -f $(lib_LTLIBRARIES)
707 @list='$(lib_LTLIBRARIES)'; for p in $$list; do \
708 dir="`echo $$p | sed -e 's|/[^/]*$$||'`"; \
709 test "$$dir" != "$$p" || dir=.; \
710 echo "rm -f \"$${dir}/so_locations\""; \
711 rm -f "$${dir}/so_locations"; \
712 done
713 unit_tests/gtest/src/$(am__dirstamp):
714 @$(MKDIR_P) unit_tests/gtest/src
715 @: > unit_tests/gtest/src/$(am__dirstamp)
716 unit_tests/gtest/src/$(DEPDIR)/$(am__dirstamp):
717 @$(MKDIR_P) unit_tests/gtest/src/$(DEPDIR)
718 @: > unit_tests/gtest/src/$(DEPDIR)/$(am__dirstamp)
719 unit_tests/gtest/src/libgtest_la-gtest-all.lo: \
720 unit_tests/gtest/src/$(am__dirstamp) \
721 unit_tests/gtest/src/$(DEPDIR)/$(am__dirstamp)
722 libgtest.la: $(libgtest_la_OBJECTS) $(libgtest_la_DEPENDENCIES)
723 $(AM_V_CXXLD)$(libgtest_la_LINK) $(libgtest_la_OBJECTS) $(libgtest_la_LIBADD) $(LIBS)
724 unit_tests/gtest/src/libgtest_main_la-gtest_main.lo: \
725 unit_tests/gtest/src/$(am__dirstamp) \
726 unit_tests/gtest/src/$(DEPDIR)/$(am__dirstamp)
727 libgtest_main.la: $(libgtest_main_la_OBJECTS) $(libgtest_main_la_DEPENDENCIES)
728 $(AM_V_CXXLD)$(libgtest_main_la_LINK) $(libgtest_main_la_OBJECTS) $(libgtest_main_la_LIBADD) $(LIBS)
729 jellyfish/$(am__dirstamp):
730 @$(MKDIR_P) jellyfish
731 @: > jellyfish/$(am__dirstamp)
732 jellyfish/$(DEPDIR)/$(am__dirstamp):
733 @$(MKDIR_P) jellyfish/$(DEPDIR)
734 @: > jellyfish/$(DEPDIR)/$(am__dirstamp)
735 jellyfish/libjellyfish_la-square_binary_matrix.lo: \
736 jellyfish/$(am__dirstamp) jellyfish/$(DEPDIR)/$(am__dirstamp)
737 jellyfish/libjellyfish_la-err.lo: jellyfish/$(am__dirstamp) \
738 jellyfish/$(DEPDIR)/$(am__dirstamp)
739 jellyfish/libjellyfish_la-misc.lo: jellyfish/$(am__dirstamp) \
740 jellyfish/$(DEPDIR)/$(am__dirstamp)
741 jellyfish/libjellyfish_la-storage.lo: jellyfish/$(am__dirstamp) \
742 jellyfish/$(DEPDIR)/$(am__dirstamp)
743 jellyfish/libjellyfish_la-thread_exec.lo: jellyfish/$(am__dirstamp) \
744 jellyfish/$(DEPDIR)/$(am__dirstamp)
745 jellyfish/libjellyfish_la-time.lo: jellyfish/$(am__dirstamp) \
746 jellyfish/$(DEPDIR)/$(am__dirstamp)
747 jellyfish/libjellyfish_la-file_parser.lo: jellyfish/$(am__dirstamp) \
748 jellyfish/$(DEPDIR)/$(am__dirstamp)
749 jellyfish/libjellyfish_la-read_parser.lo: jellyfish/$(am__dirstamp) \
750 jellyfish/$(DEPDIR)/$(am__dirstamp)
751 jellyfish/libjellyfish_la-parse_read.lo: jellyfish/$(am__dirstamp) \
752 jellyfish/$(DEPDIR)/$(am__dirstamp)
753 jellyfish/libjellyfish_la-half.lo: jellyfish/$(am__dirstamp) \
754 jellyfish/$(DEPDIR)/$(am__dirstamp)
755 jellyfish/libjellyfish_la-mapped_file.lo: jellyfish/$(am__dirstamp) \
756 jellyfish/$(DEPDIR)/$(am__dirstamp)
757 jellyfish/libjellyfish_la-parse_dna.lo: jellyfish/$(am__dirstamp) \
758 jellyfish/$(DEPDIR)/$(am__dirstamp)
759 jellyfish/libjellyfish_la-parse_quake.lo: jellyfish/$(am__dirstamp) \
760 jellyfish/$(DEPDIR)/$(am__dirstamp)
761 jellyfish/libjellyfish_la-parse_qual_dna.lo: \
762 jellyfish/$(am__dirstamp) jellyfish/$(DEPDIR)/$(am__dirstamp)
763 jellyfish/libjellyfish_la-sequence_parser.lo: \
764 jellyfish/$(am__dirstamp) jellyfish/$(DEPDIR)/$(am__dirstamp)
765 jellyfish/libjellyfish_la-seq_qual_parser.lo: \
766 jellyfish/$(am__dirstamp) jellyfish/$(DEPDIR)/$(am__dirstamp)
767 jellyfish/libjellyfish_la-backtrace.lo: jellyfish/$(am__dirstamp) \
768 jellyfish/$(DEPDIR)/$(am__dirstamp)
769 jellyfish/libjellyfish_la-floats.lo: jellyfish/$(am__dirstamp) \
770 jellyfish/$(DEPDIR)/$(am__dirstamp)
771 jellyfish/libjellyfish_la-dbg.lo: jellyfish/$(am__dirstamp) \
772 jellyfish/$(DEPDIR)/$(am__dirstamp)
773 jellyfish/libjellyfish_la-allocators_mmap.lo: \
774 jellyfish/$(am__dirstamp) jellyfish/$(DEPDIR)/$(am__dirstamp)
775 libjellyfish.la: $(libjellyfish_la_OBJECTS) $(libjellyfish_la_DEPENDENCIES)
776 $(AM_V_CXXLD)$(libjellyfish_la_LINK) -rpath $(libdir) $(libjellyfish_la_OBJECTS) $(libjellyfish_la_LIBADD) $(LIBS)
777 install-binPROGRAMS: $(bin_PROGRAMS)
778 @$(NORMAL_INSTALL)
779 test -z "$(bindir)" || $(MKDIR_P) "$(DESTDIR)$(bindir)"
780 @list='$(bin_PROGRAMS)'; test -n "$(bindir)" || list=; \
781 for p in $$list; do echo "$$p $$p"; done | \
782 sed 's/$(EXEEXT)$$//' | \
783 while read p p1; do if test -f $$p || test -f $$p1; \
784 then echo "$$p"; echo "$$p"; else :; fi; \
785 done | \
786 sed -e 'p;s,.*/,,;n;h' -e 's|.*|.|' \
787 -e 'p;x;s,.*/,,;s/$(EXEEXT)$$//;$(transform);s/$$/$(EXEEXT)/' | \
788 sed 'N;N;N;s,\n, ,g' | \
789 $(AWK) 'BEGIN { files["."] = ""; dirs["."] = 1 } \
790 { d=$$3; if (dirs[d] != 1) { print "d", d; dirs[d] = 1 } \
791 if ($$2 == $$4) files[d] = files[d] " " $$1; \
792 else { print "f", $$3 "/" $$4, $$1; } } \
793 END { for (d in files) print "f", d, files[d] }' | \
794 while read type dir files; do \
795 if test "$$dir" = .; then dir=; else dir=/$$dir; fi; \
796 test -z "$$files" || { \
797 echo " $(INSTALL_PROGRAM_ENV) $(LIBTOOL) $(AM_LIBTOOLFLAGS) $(LIBTOOLFLAGS) --mode=install $(INSTALL_PROGRAM) $$files '$(DESTDIR)$(bindir)$$dir'"; \
798 $(INSTALL_PROGRAM_ENV) $(LIBTOOL) $(AM_LIBTOOLFLAGS) $(LIBTOOLFLAGS) --mode=install $(INSTALL_PROGRAM) $$files "$(DESTDIR)$(bindir)$$dir" || exit $$?; \
800 ; done
802 uninstall-binPROGRAMS:
803 @$(NORMAL_UNINSTALL)
804 @list='$(bin_PROGRAMS)'; test -n "$(bindir)" || list=; \
805 files=`for p in $$list; do echo "$$p"; done | \
806 sed -e 'h;s,^.*/,,;s/$(EXEEXT)$$//;$(transform)' \
807 -e 's/$$/$(EXEEXT)/' `; \
808 test -n "$$list" || exit 0; \
809 echo " ( cd '$(DESTDIR)$(bindir)' && rm -f" $$files ")"; \
810 cd "$(DESTDIR)$(bindir)" && rm -f $$files
812 clean-binPROGRAMS:
813 @list='$(bin_PROGRAMS)'; test -n "$$list" || exit 0; \
814 echo " rm -f" $$list; \
815 rm -f $$list || exit $$?; \
816 test -n "$(EXEEXT)" || exit 0; \
817 list=`for p in $$list; do echo "$$p"; done | sed 's/$(EXEEXT)$$//'`; \
818 echo " rm -f" $$list; \
819 rm -f $$list
821 clean-checkPROGRAMS:
822 @list='$(check_PROGRAMS)'; test -n "$$list" || exit 0; \
823 echo " rm -f" $$list; \
824 rm -f $$list || exit $$?; \
825 test -n "$(EXEEXT)" || exit 0; \
826 list=`for p in $$list; do echo "$$p"; done | sed 's/$(EXEEXT)$$//'`; \
827 echo " rm -f" $$list; \
828 rm -f $$list
829 jellyfish/generate_sequence.$(OBJEXT): jellyfish/$(am__dirstamp) \
830 jellyfish/$(DEPDIR)/$(am__dirstamp)
831 jellyfish/misc.$(OBJEXT): jellyfish/$(am__dirstamp) \
832 jellyfish/$(DEPDIR)/$(am__dirstamp)
833 jellyfish/mersenne.$(OBJEXT): jellyfish/$(am__dirstamp) \
834 jellyfish/$(DEPDIR)/$(am__dirstamp)
835 jellyfish/square_binary_matrix.$(OBJEXT): jellyfish/$(am__dirstamp) \
836 jellyfish/$(DEPDIR)/$(am__dirstamp)
837 jellyfish/backtrace.$(OBJEXT): jellyfish/$(am__dirstamp) \
838 jellyfish/$(DEPDIR)/$(am__dirstamp)
839 jellyfish/dbg.$(OBJEXT): jellyfish/$(am__dirstamp) \
840 jellyfish/$(DEPDIR)/$(am__dirstamp)
841 jellyfish/time.$(OBJEXT): jellyfish/$(am__dirstamp) \
842 jellyfish/$(DEPDIR)/$(am__dirstamp)
843 bin/$(am__dirstamp):
844 @$(MKDIR_P) bin
845 @: > bin/$(am__dirstamp)
846 bin/generate_sequence$(EXEEXT): $(bin_generate_sequence_OBJECTS) $(bin_generate_sequence_DEPENDENCIES) bin/$(am__dirstamp)
847 @rm -f bin/generate_sequence$(EXEEXT)
848 $(AM_V_CXXLD)$(CXXLINK) $(bin_generate_sequence_OBJECTS) $(bin_generate_sequence_LDADD) $(LIBS)
849 jellyfish/jellyfish.$(OBJEXT): jellyfish/$(am__dirstamp) \
850 jellyfish/$(DEPDIR)/$(am__dirstamp)
851 jellyfish/stats_main.$(OBJEXT): jellyfish/$(am__dirstamp) \
852 jellyfish/$(DEPDIR)/$(am__dirstamp)
853 jellyfish/hash_merge.$(OBJEXT): jellyfish/$(am__dirstamp) \
854 jellyfish/$(DEPDIR)/$(am__dirstamp)
855 jellyfish/storage.$(OBJEXT): jellyfish/$(am__dirstamp) \
856 jellyfish/$(DEPDIR)/$(am__dirstamp)
857 jellyfish/err.$(OBJEXT): jellyfish/$(am__dirstamp) \
858 jellyfish/$(DEPDIR)/$(am__dirstamp)
859 jellyfish/mer_counter.$(OBJEXT): jellyfish/$(am__dirstamp) \
860 jellyfish/$(DEPDIR)/$(am__dirstamp)
861 jellyfish/histo_main.$(OBJEXT): jellyfish/$(am__dirstamp) \
862 jellyfish/$(DEPDIR)/$(am__dirstamp)
863 jellyfish/dump_main.$(OBJEXT): jellyfish/$(am__dirstamp) \
864 jellyfish/$(DEPDIR)/$(am__dirstamp)
865 jellyfish/thread_exec.$(OBJEXT): jellyfish/$(am__dirstamp) \
866 jellyfish/$(DEPDIR)/$(am__dirstamp)
867 jellyfish/query_main.$(OBJEXT): jellyfish/$(am__dirstamp) \
868 jellyfish/$(DEPDIR)/$(am__dirstamp)
869 jellyfish/dump_fastq_main.$(OBJEXT): jellyfish/$(am__dirstamp) \
870 jellyfish/$(DEPDIR)/$(am__dirstamp)
871 jellyfish/histo_fastq_main.$(OBJEXT): jellyfish/$(am__dirstamp) \
872 jellyfish/$(DEPDIR)/$(am__dirstamp)
873 jellyfish/cite.$(OBJEXT): jellyfish/$(am__dirstamp) \
874 jellyfish/$(DEPDIR)/$(am__dirstamp)
875 jellyfish/parse_dna.$(OBJEXT): jellyfish/$(am__dirstamp) \
876 jellyfish/$(DEPDIR)/$(am__dirstamp)
877 jellyfish/file_parser.$(OBJEXT): jellyfish/$(am__dirstamp) \
878 jellyfish/$(DEPDIR)/$(am__dirstamp)
879 jellyfish/parse_quake.$(OBJEXT): jellyfish/$(am__dirstamp) \
880 jellyfish/$(DEPDIR)/$(am__dirstamp)
881 jellyfish/parse_qual_dna.$(OBJEXT): jellyfish/$(am__dirstamp) \
882 jellyfish/$(DEPDIR)/$(am__dirstamp)
883 jellyfish/sequence_parser.$(OBJEXT): jellyfish/$(am__dirstamp) \
884 jellyfish/$(DEPDIR)/$(am__dirstamp)
885 jellyfish/seq_qual_parser.$(OBJEXT): jellyfish/$(am__dirstamp) \
886 jellyfish/$(DEPDIR)/$(am__dirstamp)
887 jellyfish/half.$(OBJEXT): jellyfish/$(am__dirstamp) \
888 jellyfish/$(DEPDIR)/$(am__dirstamp)
889 jellyfish/hash_fastq_merge.$(OBJEXT): jellyfish/$(am__dirstamp) \
890 jellyfish/$(DEPDIR)/$(am__dirstamp)
891 jellyfish/mapped_file.$(OBJEXT): jellyfish/$(am__dirstamp) \
892 jellyfish/$(DEPDIR)/$(am__dirstamp)
893 jellyfish/floats.$(OBJEXT): jellyfish/$(am__dirstamp) \
894 jellyfish/$(DEPDIR)/$(am__dirstamp)
895 jellyfish/allocators_mmap.$(OBJEXT): jellyfish/$(am__dirstamp) \
896 jellyfish/$(DEPDIR)/$(am__dirstamp)
897 jellyfish/yaggo.$(OBJEXT): jellyfish/$(am__dirstamp) \
898 jellyfish/$(DEPDIR)/$(am__dirstamp)
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1131 @AMDEP_TRUE@@am__fastdepCXX_FALSE@ source='jellyfish/err.cc' object='jellyfish/libjellyfish_la-err.lo' libtool=yes @AMDEPBACKSLASH@
1132 @AMDEP_TRUE@@am__fastdepCXX_FALSE@ DEPDIR=$(DEPDIR) $(CXXDEPMODE) $(depcomp) @AMDEPBACKSLASH@
1133 @am__fastdepCXX_FALSE@ $(LIBTOOL) $(AM_V_lt) --tag=CXX $(AM_LIBTOOLFLAGS) $(LIBTOOLFLAGS) --mode=compile $(CXX) $(DEFS) $(DEFAULT_INCLUDES) $(INCLUDES) $(libjellyfish_la_CPPFLAGS) $(CPPFLAGS) $(AM_CXXFLAGS) $(CXXFLAGS) -c -o jellyfish/libjellyfish_la-err.lo `test -f 'jellyfish/err.cc' || echo '$(srcdir)/'`jellyfish/err.cc
1135 jellyfish/libjellyfish_la-misc.lo: jellyfish/misc.cc
1136 @am__fastdepCXX_TRUE@ $(AM_V_CXX)$(LIBTOOL) $(AM_V_lt) --tag=CXX $(AM_LIBTOOLFLAGS) $(LIBTOOLFLAGS) --mode=compile $(CXX) $(DEFS) $(DEFAULT_INCLUDES) $(INCLUDES) $(libjellyfish_la_CPPFLAGS) $(CPPFLAGS) $(AM_CXXFLAGS) $(CXXFLAGS) -MT jellyfish/libjellyfish_la-misc.lo -MD -MP -MF jellyfish/$(DEPDIR)/libjellyfish_la-misc.Tpo -c -o jellyfish/libjellyfish_la-misc.lo `test -f 'jellyfish/misc.cc' || echo '$(srcdir)/'`jellyfish/misc.cc
1137 @am__fastdepCXX_TRUE@ $(AM_V_at)$(am__mv) jellyfish/$(DEPDIR)/libjellyfish_la-misc.Tpo jellyfish/$(DEPDIR)/libjellyfish_la-misc.Plo
1138 @am__fastdepCXX_FALSE@ $(AM_V_CXX) @AM_BACKSLASH@
1139 @AMDEP_TRUE@@am__fastdepCXX_FALSE@ source='jellyfish/misc.cc' object='jellyfish/libjellyfish_la-misc.lo' libtool=yes @AMDEPBACKSLASH@
1140 @AMDEP_TRUE@@am__fastdepCXX_FALSE@ DEPDIR=$(DEPDIR) $(CXXDEPMODE) $(depcomp) @AMDEPBACKSLASH@
1141 @am__fastdepCXX_FALSE@ $(LIBTOOL) $(AM_V_lt) --tag=CXX $(AM_LIBTOOLFLAGS) $(LIBTOOLFLAGS) --mode=compile $(CXX) $(DEFS) $(DEFAULT_INCLUDES) $(INCLUDES) $(libjellyfish_la_CPPFLAGS) $(CPPFLAGS) $(AM_CXXFLAGS) $(CXXFLAGS) -c -o jellyfish/libjellyfish_la-misc.lo `test -f 'jellyfish/misc.cc' || echo '$(srcdir)/'`jellyfish/misc.cc
1143 jellyfish/libjellyfish_la-storage.lo: jellyfish/storage.cc
1144 @am__fastdepCXX_TRUE@ $(AM_V_CXX)$(LIBTOOL) $(AM_V_lt) --tag=CXX $(AM_LIBTOOLFLAGS) $(LIBTOOLFLAGS) --mode=compile $(CXX) $(DEFS) $(DEFAULT_INCLUDES) $(INCLUDES) $(libjellyfish_la_CPPFLAGS) $(CPPFLAGS) $(AM_CXXFLAGS) $(CXXFLAGS) -MT jellyfish/libjellyfish_la-storage.lo -MD -MP -MF jellyfish/$(DEPDIR)/libjellyfish_la-storage.Tpo -c -o jellyfish/libjellyfish_la-storage.lo `test -f 'jellyfish/storage.cc' || echo '$(srcdir)/'`jellyfish/storage.cc
1145 @am__fastdepCXX_TRUE@ $(AM_V_at)$(am__mv) jellyfish/$(DEPDIR)/libjellyfish_la-storage.Tpo jellyfish/$(DEPDIR)/libjellyfish_la-storage.Plo
1146 @am__fastdepCXX_FALSE@ $(AM_V_CXX) @AM_BACKSLASH@
1147 @AMDEP_TRUE@@am__fastdepCXX_FALSE@ source='jellyfish/storage.cc' object='jellyfish/libjellyfish_la-storage.lo' libtool=yes @AMDEPBACKSLASH@
1148 @AMDEP_TRUE@@am__fastdepCXX_FALSE@ DEPDIR=$(DEPDIR) $(CXXDEPMODE) $(depcomp) @AMDEPBACKSLASH@
1149 @am__fastdepCXX_FALSE@ $(LIBTOOL) $(AM_V_lt) --tag=CXX $(AM_LIBTOOLFLAGS) $(LIBTOOLFLAGS) --mode=compile $(CXX) $(DEFS) $(DEFAULT_INCLUDES) $(INCLUDES) $(libjellyfish_la_CPPFLAGS) $(CPPFLAGS) $(AM_CXXFLAGS) $(CXXFLAGS) -c -o jellyfish/libjellyfish_la-storage.lo `test -f 'jellyfish/storage.cc' || echo '$(srcdir)/'`jellyfish/storage.cc
1151 jellyfish/libjellyfish_la-thread_exec.lo: jellyfish/thread_exec.cc
1152 @am__fastdepCXX_TRUE@ $(AM_V_CXX)$(LIBTOOL) $(AM_V_lt) --tag=CXX $(AM_LIBTOOLFLAGS) $(LIBTOOLFLAGS) --mode=compile $(CXX) $(DEFS) $(DEFAULT_INCLUDES) $(INCLUDES) $(libjellyfish_la_CPPFLAGS) $(CPPFLAGS) $(AM_CXXFLAGS) $(CXXFLAGS) -MT jellyfish/libjellyfish_la-thread_exec.lo -MD -MP -MF jellyfish/$(DEPDIR)/libjellyfish_la-thread_exec.Tpo -c -o jellyfish/libjellyfish_la-thread_exec.lo `test -f 'jellyfish/thread_exec.cc' || echo '$(srcdir)/'`jellyfish/thread_exec.cc
1153 @am__fastdepCXX_TRUE@ $(AM_V_at)$(am__mv) jellyfish/$(DEPDIR)/libjellyfish_la-thread_exec.Tpo jellyfish/$(DEPDIR)/libjellyfish_la-thread_exec.Plo
1154 @am__fastdepCXX_FALSE@ $(AM_V_CXX) @AM_BACKSLASH@
1155 @AMDEP_TRUE@@am__fastdepCXX_FALSE@ source='jellyfish/thread_exec.cc' object='jellyfish/libjellyfish_la-thread_exec.lo' libtool=yes @AMDEPBACKSLASH@
1156 @AMDEP_TRUE@@am__fastdepCXX_FALSE@ DEPDIR=$(DEPDIR) $(CXXDEPMODE) $(depcomp) @AMDEPBACKSLASH@
1157 @am__fastdepCXX_FALSE@ $(LIBTOOL) $(AM_V_lt) --tag=CXX $(AM_LIBTOOLFLAGS) $(LIBTOOLFLAGS) --mode=compile $(CXX) $(DEFS) $(DEFAULT_INCLUDES) $(INCLUDES) $(libjellyfish_la_CPPFLAGS) $(CPPFLAGS) $(AM_CXXFLAGS) $(CXXFLAGS) -c -o jellyfish/libjellyfish_la-thread_exec.lo `test -f 'jellyfish/thread_exec.cc' || echo '$(srcdir)/'`jellyfish/thread_exec.cc
1159 jellyfish/libjellyfish_la-time.lo: jellyfish/time.cc
1160 @am__fastdepCXX_TRUE@ $(AM_V_CXX)$(LIBTOOL) $(AM_V_lt) --tag=CXX $(AM_LIBTOOLFLAGS) $(LIBTOOLFLAGS) --mode=compile $(CXX) $(DEFS) $(DEFAULT_INCLUDES) $(INCLUDES) $(libjellyfish_la_CPPFLAGS) $(CPPFLAGS) $(AM_CXXFLAGS) $(CXXFLAGS) -MT jellyfish/libjellyfish_la-time.lo -MD -MP -MF jellyfish/$(DEPDIR)/libjellyfish_la-time.Tpo -c -o jellyfish/libjellyfish_la-time.lo `test -f 'jellyfish/time.cc' || echo '$(srcdir)/'`jellyfish/time.cc
1161 @am__fastdepCXX_TRUE@ $(AM_V_at)$(am__mv) jellyfish/$(DEPDIR)/libjellyfish_la-time.Tpo jellyfish/$(DEPDIR)/libjellyfish_la-time.Plo
1162 @am__fastdepCXX_FALSE@ $(AM_V_CXX) @AM_BACKSLASH@
1163 @AMDEP_TRUE@@am__fastdepCXX_FALSE@ source='jellyfish/time.cc' object='jellyfish/libjellyfish_la-time.lo' libtool=yes @AMDEPBACKSLASH@
1164 @AMDEP_TRUE@@am__fastdepCXX_FALSE@ DEPDIR=$(DEPDIR) $(CXXDEPMODE) $(depcomp) @AMDEPBACKSLASH@
1165 @am__fastdepCXX_FALSE@ $(LIBTOOL) $(AM_V_lt) --tag=CXX $(AM_LIBTOOLFLAGS) $(LIBTOOLFLAGS) --mode=compile $(CXX) $(DEFS) $(DEFAULT_INCLUDES) $(INCLUDES) $(libjellyfish_la_CPPFLAGS) $(CPPFLAGS) $(AM_CXXFLAGS) $(CXXFLAGS) -c -o jellyfish/libjellyfish_la-time.lo `test -f 'jellyfish/time.cc' || echo '$(srcdir)/'`jellyfish/time.cc
1167 jellyfish/libjellyfish_la-file_parser.lo: jellyfish/file_parser.cc
1168 @am__fastdepCXX_TRUE@ $(AM_V_CXX)$(LIBTOOL) $(AM_V_lt) --tag=CXX $(AM_LIBTOOLFLAGS) $(LIBTOOLFLAGS) --mode=compile $(CXX) $(DEFS) $(DEFAULT_INCLUDES) $(INCLUDES) $(libjellyfish_la_CPPFLAGS) $(CPPFLAGS) $(AM_CXXFLAGS) $(CXXFLAGS) -MT jellyfish/libjellyfish_la-file_parser.lo -MD -MP -MF jellyfish/$(DEPDIR)/libjellyfish_la-file_parser.Tpo -c -o jellyfish/libjellyfish_la-file_parser.lo `test -f 'jellyfish/file_parser.cc' || echo '$(srcdir)/'`jellyfish/file_parser.cc
1169 @am__fastdepCXX_TRUE@ $(AM_V_at)$(am__mv) jellyfish/$(DEPDIR)/libjellyfish_la-file_parser.Tpo jellyfish/$(DEPDIR)/libjellyfish_la-file_parser.Plo
1170 @am__fastdepCXX_FALSE@ $(AM_V_CXX) @AM_BACKSLASH@
1171 @AMDEP_TRUE@@am__fastdepCXX_FALSE@ source='jellyfish/file_parser.cc' object='jellyfish/libjellyfish_la-file_parser.lo' libtool=yes @AMDEPBACKSLASH@
1172 @AMDEP_TRUE@@am__fastdepCXX_FALSE@ DEPDIR=$(DEPDIR) $(CXXDEPMODE) $(depcomp) @AMDEPBACKSLASH@
1173 @am__fastdepCXX_FALSE@ $(LIBTOOL) $(AM_V_lt) --tag=CXX $(AM_LIBTOOLFLAGS) $(LIBTOOLFLAGS) --mode=compile $(CXX) $(DEFS) $(DEFAULT_INCLUDES) $(INCLUDES) $(libjellyfish_la_CPPFLAGS) $(CPPFLAGS) $(AM_CXXFLAGS) $(CXXFLAGS) -c -o jellyfish/libjellyfish_la-file_parser.lo `test -f 'jellyfish/file_parser.cc' || echo '$(srcdir)/'`jellyfish/file_parser.cc
1175 jellyfish/libjellyfish_la-read_parser.lo: jellyfish/read_parser.cc
1176 @am__fastdepCXX_TRUE@ $(AM_V_CXX)$(LIBTOOL) $(AM_V_lt) --tag=CXX $(AM_LIBTOOLFLAGS) $(LIBTOOLFLAGS) --mode=compile $(CXX) $(DEFS) $(DEFAULT_INCLUDES) $(INCLUDES) $(libjellyfish_la_CPPFLAGS) $(CPPFLAGS) $(AM_CXXFLAGS) $(CXXFLAGS) -MT jellyfish/libjellyfish_la-read_parser.lo -MD -MP -MF jellyfish/$(DEPDIR)/libjellyfish_la-read_parser.Tpo -c -o jellyfish/libjellyfish_la-read_parser.lo `test -f 'jellyfish/read_parser.cc' || echo '$(srcdir)/'`jellyfish/read_parser.cc
1177 @am__fastdepCXX_TRUE@ $(AM_V_at)$(am__mv) jellyfish/$(DEPDIR)/libjellyfish_la-read_parser.Tpo jellyfish/$(DEPDIR)/libjellyfish_la-read_parser.Plo
1178 @am__fastdepCXX_FALSE@ $(AM_V_CXX) @AM_BACKSLASH@
1179 @AMDEP_TRUE@@am__fastdepCXX_FALSE@ source='jellyfish/read_parser.cc' object='jellyfish/libjellyfish_la-read_parser.lo' libtool=yes @AMDEPBACKSLASH@
1180 @AMDEP_TRUE@@am__fastdepCXX_FALSE@ DEPDIR=$(DEPDIR) $(CXXDEPMODE) $(depcomp) @AMDEPBACKSLASH@
1181 @am__fastdepCXX_FALSE@ $(LIBTOOL) $(AM_V_lt) --tag=CXX $(AM_LIBTOOLFLAGS) $(LIBTOOLFLAGS) --mode=compile $(CXX) $(DEFS) $(DEFAULT_INCLUDES) $(INCLUDES) $(libjellyfish_la_CPPFLAGS) $(CPPFLAGS) $(AM_CXXFLAGS) $(CXXFLAGS) -c -o jellyfish/libjellyfish_la-read_parser.lo `test -f 'jellyfish/read_parser.cc' || echo '$(srcdir)/'`jellyfish/read_parser.cc
1183 jellyfish/libjellyfish_la-parse_read.lo: jellyfish/parse_read.cc
1184 @am__fastdepCXX_TRUE@ $(AM_V_CXX)$(LIBTOOL) $(AM_V_lt) --tag=CXX $(AM_LIBTOOLFLAGS) $(LIBTOOLFLAGS) --mode=compile $(CXX) $(DEFS) $(DEFAULT_INCLUDES) $(INCLUDES) $(libjellyfish_la_CPPFLAGS) $(CPPFLAGS) $(AM_CXXFLAGS) $(CXXFLAGS) -MT jellyfish/libjellyfish_la-parse_read.lo -MD -MP -MF jellyfish/$(DEPDIR)/libjellyfish_la-parse_read.Tpo -c -o jellyfish/libjellyfish_la-parse_read.lo `test -f 'jellyfish/parse_read.cc' || echo '$(srcdir)/'`jellyfish/parse_read.cc
1185 @am__fastdepCXX_TRUE@ $(AM_V_at)$(am__mv) jellyfish/$(DEPDIR)/libjellyfish_la-parse_read.Tpo jellyfish/$(DEPDIR)/libjellyfish_la-parse_read.Plo
1186 @am__fastdepCXX_FALSE@ $(AM_V_CXX) @AM_BACKSLASH@
1187 @AMDEP_TRUE@@am__fastdepCXX_FALSE@ source='jellyfish/parse_read.cc' object='jellyfish/libjellyfish_la-parse_read.lo' libtool=yes @AMDEPBACKSLASH@
1188 @AMDEP_TRUE@@am__fastdepCXX_FALSE@ DEPDIR=$(DEPDIR) $(CXXDEPMODE) $(depcomp) @AMDEPBACKSLASH@
1189 @am__fastdepCXX_FALSE@ $(LIBTOOL) $(AM_V_lt) --tag=CXX $(AM_LIBTOOLFLAGS) $(LIBTOOLFLAGS) --mode=compile $(CXX) $(DEFS) $(DEFAULT_INCLUDES) $(INCLUDES) $(libjellyfish_la_CPPFLAGS) $(CPPFLAGS) $(AM_CXXFLAGS) $(CXXFLAGS) -c -o jellyfish/libjellyfish_la-parse_read.lo `test -f 'jellyfish/parse_read.cc' || echo '$(srcdir)/'`jellyfish/parse_read.cc
1191 jellyfish/libjellyfish_la-half.lo: jellyfish/half.cpp
1192 @am__fastdepCXX_TRUE@ $(AM_V_CXX)$(LIBTOOL) $(AM_V_lt) --tag=CXX $(AM_LIBTOOLFLAGS) $(LIBTOOLFLAGS) --mode=compile $(CXX) $(DEFS) $(DEFAULT_INCLUDES) $(INCLUDES) $(libjellyfish_la_CPPFLAGS) $(CPPFLAGS) $(AM_CXXFLAGS) $(CXXFLAGS) -MT jellyfish/libjellyfish_la-half.lo -MD -MP -MF jellyfish/$(DEPDIR)/libjellyfish_la-half.Tpo -c -o jellyfish/libjellyfish_la-half.lo `test -f 'jellyfish/half.cpp' || echo '$(srcdir)/'`jellyfish/half.cpp
1193 @am__fastdepCXX_TRUE@ $(AM_V_at)$(am__mv) jellyfish/$(DEPDIR)/libjellyfish_la-half.Tpo jellyfish/$(DEPDIR)/libjellyfish_la-half.Plo
1194 @am__fastdepCXX_FALSE@ $(AM_V_CXX) @AM_BACKSLASH@
1195 @AMDEP_TRUE@@am__fastdepCXX_FALSE@ source='jellyfish/half.cpp' object='jellyfish/libjellyfish_la-half.lo' libtool=yes @AMDEPBACKSLASH@
1196 @AMDEP_TRUE@@am__fastdepCXX_FALSE@ DEPDIR=$(DEPDIR) $(CXXDEPMODE) $(depcomp) @AMDEPBACKSLASH@
1197 @am__fastdepCXX_FALSE@ $(LIBTOOL) $(AM_V_lt) --tag=CXX $(AM_LIBTOOLFLAGS) $(LIBTOOLFLAGS) --mode=compile $(CXX) $(DEFS) $(DEFAULT_INCLUDES) $(INCLUDES) $(libjellyfish_la_CPPFLAGS) $(CPPFLAGS) $(AM_CXXFLAGS) $(CXXFLAGS) -c -o jellyfish/libjellyfish_la-half.lo `test -f 'jellyfish/half.cpp' || echo '$(srcdir)/'`jellyfish/half.cpp
1199 jellyfish/libjellyfish_la-mapped_file.lo: jellyfish/mapped_file.cc
1200 @am__fastdepCXX_TRUE@ $(AM_V_CXX)$(LIBTOOL) $(AM_V_lt) --tag=CXX $(AM_LIBTOOLFLAGS) $(LIBTOOLFLAGS) --mode=compile $(CXX) $(DEFS) $(DEFAULT_INCLUDES) $(INCLUDES) $(libjellyfish_la_CPPFLAGS) $(CPPFLAGS) $(AM_CXXFLAGS) $(CXXFLAGS) -MT jellyfish/libjellyfish_la-mapped_file.lo -MD -MP -MF jellyfish/$(DEPDIR)/libjellyfish_la-mapped_file.Tpo -c -o jellyfish/libjellyfish_la-mapped_file.lo `test -f 'jellyfish/mapped_file.cc' || echo '$(srcdir)/'`jellyfish/mapped_file.cc
1201 @am__fastdepCXX_TRUE@ $(AM_V_at)$(am__mv) jellyfish/$(DEPDIR)/libjellyfish_la-mapped_file.Tpo jellyfish/$(DEPDIR)/libjellyfish_la-mapped_file.Plo
1202 @am__fastdepCXX_FALSE@ $(AM_V_CXX) @AM_BACKSLASH@
1203 @AMDEP_TRUE@@am__fastdepCXX_FALSE@ source='jellyfish/mapped_file.cc' object='jellyfish/libjellyfish_la-mapped_file.lo' libtool=yes @AMDEPBACKSLASH@
1204 @AMDEP_TRUE@@am__fastdepCXX_FALSE@ DEPDIR=$(DEPDIR) $(CXXDEPMODE) $(depcomp) @AMDEPBACKSLASH@
1205 @am__fastdepCXX_FALSE@ $(LIBTOOL) $(AM_V_lt) --tag=CXX $(AM_LIBTOOLFLAGS) $(LIBTOOLFLAGS) --mode=compile $(CXX) $(DEFS) $(DEFAULT_INCLUDES) $(INCLUDES) $(libjellyfish_la_CPPFLAGS) $(CPPFLAGS) $(AM_CXXFLAGS) $(CXXFLAGS) -c -o jellyfish/libjellyfish_la-mapped_file.lo `test -f 'jellyfish/mapped_file.cc' || echo '$(srcdir)/'`jellyfish/mapped_file.cc
1207 jellyfish/libjellyfish_la-parse_dna.lo: jellyfish/parse_dna.cc
1208 @am__fastdepCXX_TRUE@ $(AM_V_CXX)$(LIBTOOL) $(AM_V_lt) --tag=CXX $(AM_LIBTOOLFLAGS) $(LIBTOOLFLAGS) --mode=compile $(CXX) $(DEFS) $(DEFAULT_INCLUDES) $(INCLUDES) $(libjellyfish_la_CPPFLAGS) $(CPPFLAGS) $(AM_CXXFLAGS) $(CXXFLAGS) -MT jellyfish/libjellyfish_la-parse_dna.lo -MD -MP -MF jellyfish/$(DEPDIR)/libjellyfish_la-parse_dna.Tpo -c -o jellyfish/libjellyfish_la-parse_dna.lo `test -f 'jellyfish/parse_dna.cc' || echo '$(srcdir)/'`jellyfish/parse_dna.cc
1209 @am__fastdepCXX_TRUE@ $(AM_V_at)$(am__mv) jellyfish/$(DEPDIR)/libjellyfish_la-parse_dna.Tpo jellyfish/$(DEPDIR)/libjellyfish_la-parse_dna.Plo
1210 @am__fastdepCXX_FALSE@ $(AM_V_CXX) @AM_BACKSLASH@
1211 @AMDEP_TRUE@@am__fastdepCXX_FALSE@ source='jellyfish/parse_dna.cc' object='jellyfish/libjellyfish_la-parse_dna.lo' libtool=yes @AMDEPBACKSLASH@
1212 @AMDEP_TRUE@@am__fastdepCXX_FALSE@ DEPDIR=$(DEPDIR) $(CXXDEPMODE) $(depcomp) @AMDEPBACKSLASH@
1213 @am__fastdepCXX_FALSE@ $(LIBTOOL) $(AM_V_lt) --tag=CXX $(AM_LIBTOOLFLAGS) $(LIBTOOLFLAGS) --mode=compile $(CXX) $(DEFS) $(DEFAULT_INCLUDES) $(INCLUDES) $(libjellyfish_la_CPPFLAGS) $(CPPFLAGS) $(AM_CXXFLAGS) $(CXXFLAGS) -c -o jellyfish/libjellyfish_la-parse_dna.lo `test -f 'jellyfish/parse_dna.cc' || echo '$(srcdir)/'`jellyfish/parse_dna.cc
1215 jellyfish/libjellyfish_la-parse_quake.lo: jellyfish/parse_quake.cc
1216 @am__fastdepCXX_TRUE@ $(AM_V_CXX)$(LIBTOOL) $(AM_V_lt) --tag=CXX $(AM_LIBTOOLFLAGS) $(LIBTOOLFLAGS) --mode=compile $(CXX) $(DEFS) $(DEFAULT_INCLUDES) $(INCLUDES) $(libjellyfish_la_CPPFLAGS) $(CPPFLAGS) $(AM_CXXFLAGS) $(CXXFLAGS) -MT jellyfish/libjellyfish_la-parse_quake.lo -MD -MP -MF jellyfish/$(DEPDIR)/libjellyfish_la-parse_quake.Tpo -c -o jellyfish/libjellyfish_la-parse_quake.lo `test -f 'jellyfish/parse_quake.cc' || echo '$(srcdir)/'`jellyfish/parse_quake.cc
1217 @am__fastdepCXX_TRUE@ $(AM_V_at)$(am__mv) jellyfish/$(DEPDIR)/libjellyfish_la-parse_quake.Tpo jellyfish/$(DEPDIR)/libjellyfish_la-parse_quake.Plo
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1219 @AMDEP_TRUE@@am__fastdepCXX_FALSE@ source='jellyfish/parse_quake.cc' object='jellyfish/libjellyfish_la-parse_quake.lo' libtool=yes @AMDEPBACKSLASH@
1220 @AMDEP_TRUE@@am__fastdepCXX_FALSE@ DEPDIR=$(DEPDIR) $(CXXDEPMODE) $(depcomp) @AMDEPBACKSLASH@
1221 @am__fastdepCXX_FALSE@ $(LIBTOOL) $(AM_V_lt) --tag=CXX $(AM_LIBTOOLFLAGS) $(LIBTOOLFLAGS) --mode=compile $(CXX) $(DEFS) $(DEFAULT_INCLUDES) $(INCLUDES) $(libjellyfish_la_CPPFLAGS) $(CPPFLAGS) $(AM_CXXFLAGS) $(CXXFLAGS) -c -o jellyfish/libjellyfish_la-parse_quake.lo `test -f 'jellyfish/parse_quake.cc' || echo '$(srcdir)/'`jellyfish/parse_quake.cc
1223 jellyfish/libjellyfish_la-parse_qual_dna.lo: jellyfish/parse_qual_dna.cc
1224 @am__fastdepCXX_TRUE@ $(AM_V_CXX)$(LIBTOOL) $(AM_V_lt) --tag=CXX $(AM_LIBTOOLFLAGS) $(LIBTOOLFLAGS) --mode=compile $(CXX) $(DEFS) $(DEFAULT_INCLUDES) $(INCLUDES) $(libjellyfish_la_CPPFLAGS) $(CPPFLAGS) $(AM_CXXFLAGS) $(CXXFLAGS) -MT jellyfish/libjellyfish_la-parse_qual_dna.lo -MD -MP -MF jellyfish/$(DEPDIR)/libjellyfish_la-parse_qual_dna.Tpo -c -o jellyfish/libjellyfish_la-parse_qual_dna.lo `test -f 'jellyfish/parse_qual_dna.cc' || echo '$(srcdir)/'`jellyfish/parse_qual_dna.cc
1225 @am__fastdepCXX_TRUE@ $(AM_V_at)$(am__mv) jellyfish/$(DEPDIR)/libjellyfish_la-parse_qual_dna.Tpo jellyfish/$(DEPDIR)/libjellyfish_la-parse_qual_dna.Plo
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1228 @AMDEP_TRUE@@am__fastdepCXX_FALSE@ DEPDIR=$(DEPDIR) $(CXXDEPMODE) $(depcomp) @AMDEPBACKSLASH@
1229 @am__fastdepCXX_FALSE@ $(LIBTOOL) $(AM_V_lt) --tag=CXX $(AM_LIBTOOLFLAGS) $(LIBTOOLFLAGS) --mode=compile $(CXX) $(DEFS) $(DEFAULT_INCLUDES) $(INCLUDES) $(libjellyfish_la_CPPFLAGS) $(CPPFLAGS) $(AM_CXXFLAGS) $(CXXFLAGS) -c -o jellyfish/libjellyfish_la-parse_qual_dna.lo `test -f 'jellyfish/parse_qual_dna.cc' || echo '$(srcdir)/'`jellyfish/parse_qual_dna.cc
1231 jellyfish/libjellyfish_la-sequence_parser.lo: jellyfish/sequence_parser.cc
1232 @am__fastdepCXX_TRUE@ $(AM_V_CXX)$(LIBTOOL) $(AM_V_lt) --tag=CXX $(AM_LIBTOOLFLAGS) $(LIBTOOLFLAGS) --mode=compile $(CXX) $(DEFS) $(DEFAULT_INCLUDES) $(INCLUDES) $(libjellyfish_la_CPPFLAGS) $(CPPFLAGS) $(AM_CXXFLAGS) $(CXXFLAGS) -MT jellyfish/libjellyfish_la-sequence_parser.lo -MD -MP -MF jellyfish/$(DEPDIR)/libjellyfish_la-sequence_parser.Tpo -c -o jellyfish/libjellyfish_la-sequence_parser.lo `test -f 'jellyfish/sequence_parser.cc' || echo '$(srcdir)/'`jellyfish/sequence_parser.cc
1233 @am__fastdepCXX_TRUE@ $(AM_V_at)$(am__mv) jellyfish/$(DEPDIR)/libjellyfish_la-sequence_parser.Tpo jellyfish/$(DEPDIR)/libjellyfish_la-sequence_parser.Plo
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1235 @AMDEP_TRUE@@am__fastdepCXX_FALSE@ source='jellyfish/sequence_parser.cc' object='jellyfish/libjellyfish_la-sequence_parser.lo' libtool=yes @AMDEPBACKSLASH@
1236 @AMDEP_TRUE@@am__fastdepCXX_FALSE@ DEPDIR=$(DEPDIR) $(CXXDEPMODE) $(depcomp) @AMDEPBACKSLASH@
1237 @am__fastdepCXX_FALSE@ $(LIBTOOL) $(AM_V_lt) --tag=CXX $(AM_LIBTOOLFLAGS) $(LIBTOOLFLAGS) --mode=compile $(CXX) $(DEFS) $(DEFAULT_INCLUDES) $(INCLUDES) $(libjellyfish_la_CPPFLAGS) $(CPPFLAGS) $(AM_CXXFLAGS) $(CXXFLAGS) -c -o jellyfish/libjellyfish_la-sequence_parser.lo `test -f 'jellyfish/sequence_parser.cc' || echo '$(srcdir)/'`jellyfish/sequence_parser.cc
1239 jellyfish/libjellyfish_la-seq_qual_parser.lo: jellyfish/seq_qual_parser.cc
1240 @am__fastdepCXX_TRUE@ $(AM_V_CXX)$(LIBTOOL) $(AM_V_lt) --tag=CXX $(AM_LIBTOOLFLAGS) $(LIBTOOLFLAGS) --mode=compile $(CXX) $(DEFS) $(DEFAULT_INCLUDES) $(INCLUDES) $(libjellyfish_la_CPPFLAGS) $(CPPFLAGS) $(AM_CXXFLAGS) $(CXXFLAGS) -MT jellyfish/libjellyfish_la-seq_qual_parser.lo -MD -MP -MF jellyfish/$(DEPDIR)/libjellyfish_la-seq_qual_parser.Tpo -c -o jellyfish/libjellyfish_la-seq_qual_parser.lo `test -f 'jellyfish/seq_qual_parser.cc' || echo '$(srcdir)/'`jellyfish/seq_qual_parser.cc
1241 @am__fastdepCXX_TRUE@ $(AM_V_at)$(am__mv) jellyfish/$(DEPDIR)/libjellyfish_la-seq_qual_parser.Tpo jellyfish/$(DEPDIR)/libjellyfish_la-seq_qual_parser.Plo
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1247 jellyfish/libjellyfish_la-backtrace.lo: jellyfish/backtrace.cc
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1542 for f in $$list; do \
1543 read line < $$f; \
1544 case $$line in \
1545 PASS:*|XFAIL:*);; \
1546 *) echo; cat $$f;; \
1547 esac; \
1548 done; \
1549 } >$(TEST_SUITE_LOG).tmp; \
1550 mv $(TEST_SUITE_LOG).tmp $(TEST_SUITE_LOG); \
1551 if test "$$failures" -ne 0; then \
1552 msg="$${msg}See $(subdir)/$(TEST_SUITE_LOG). "; \
1553 if test -n "$(PACKAGE_BUGREPORT)"; then \
1554 msg="$${msg}Please report to $(PACKAGE_BUGREPORT). "; \
1555 fi; \
1556 fi; \
1557 test x"$$VERBOSE" = x || $$exit || cat $(TEST_SUITE_LOG); \
1558 $(am__tty_colors); \
1559 if $$exit; then \
1560 echo $(ECHO_N) "$$grn$(ECHO_C)"; \
1561 else \
1562 echo $(ECHO_N) "$$red$(ECHO_C)"; \
1563 fi; \
1564 echo "$$msg" | $(am__text_box); \
1565 echo $(ECHO_N) "$$std$(ECHO_C)"; \
1566 $$exit
1568 # Run all the tests.
1569 check-TESTS:
1570 @list='$(RECHECK_LOGS)'; test -z "$$list" || rm -f $$list
1571 @test -z "$(TEST_SUITE_LOG)" || rm -f $(TEST_SUITE_LOG)
1572 @set_logs=; if test "X$(TEST_LOGS)" = X.log; then \
1573 set_logs=TEST_LOGS=; \
1574 fi; \
1575 $(MAKE) $(AM_MAKEFLAGS) $(TEST_SUITE_LOG) $$set_logs
1577 .log.html:
1578 @list='$(RST2HTML) $$RST2HTML rst2html rst2html.py'; \
1579 for r2h in $$list; do \
1580 if ($$r2h --version) >/dev/null 2>&1; then \
1581 R2H=$$r2h; \
1582 fi; \
1583 done; \
1584 if test -z "$$R2H"; then \
1585 echo >&2 "cannot find rst2html, cannot create $@"; \
1586 exit 2; \
1587 fi; \
1588 $$R2H $< >$@.tmp
1589 @mv $@.tmp $@
1591 # Be sure to run check first, and then to convert the result.
1592 # Beware of concurrent executions. Run "check" not "check-TESTS", as
1593 # check-SCRIPTS and other dependencies are rebuilt by the former only.
1594 # And expect check to fail.
1595 check-html:
1596 @if $(MAKE) $(AM_MAKEFLAGS) check; then \
1597 rv=0; else rv=$$?; \
1598 fi; \
1599 $(MAKE) $(AM_MAKEFLAGS) $(TEST_SUITE_HTML) || exit 4; \
1600 exit $$rv
1601 recheck recheck-html:
1602 @target=`echo $@ | sed 's,^re,,'`; \
1603 list='$(TEST_LOGS)'; \
1604 list=`for f in $$list; do \
1605 test -f $$f || continue; \
1606 if read line < $$f; then \
1607 case $$line in FAIL*|XPASS*) echo $$f;; esac; \
1608 else echo $$f; fi; \
1609 done | tr '\012\015' ' '`; \
1610 $(MAKE) $(AM_MAKEFLAGS) $$target AM_MAKEFLAGS='$(AM_MAKEFLAGS) TEST_LOGS="'"$$list"'"'
1611 .sh.log:
1612 @p='$<'; $(am__check_pre) $(SH_LOG_COMPILE) "$$tst" $(am__check_post)
1613 @am__EXEEXT_TRUE@.sh$(EXEEXT).log:
1614 @am__EXEEXT_TRUE@ @p='$<'; $(am__check_pre) $(SH_LOG_COMPILE) "$$tst" $(am__check_post)
1616 distdir: $(DISTFILES)
1617 @list='$(MANS)'; if test -n "$$list"; then \
1618 list=`for p in $$list; do \
1619 if test -f $$p; then d=; else d="$(srcdir)/"; fi; \
1620 if test -f "$$d$$p"; then echo "$$d$$p"; else :; fi; done`; \
1621 if test -n "$$list" && \
1622 grep 'ab help2man is required to generate this page' $$list >/dev/null; then \
1623 echo "error: found man pages containing the \`missing help2man' replacement text:" >&2; \
1624 grep -l 'ab help2man is required to generate this page' $$list | sed 's/^/ /' >&2; \
1625 echo " to fix them, install help2man, remove and regenerate the man pages;" >&2; \
1626 echo " typically \`make maintainer-clean' will remove them" >&2; \
1627 exit 1; \
1628 else :; fi; \
1629 else :; fi
1630 $(am__remove_distdir)
1631 test -d "$(distdir)" || mkdir "$(distdir)"
1632 @srcdirstrip=`echo "$(srcdir)" | sed 's/[].[^$$\\*]/\\\\&/g'`; \
1633 topsrcdirstrip=`echo "$(top_srcdir)" | sed 's/[].[^$$\\*]/\\\\&/g'`; \
1634 list='$(DISTFILES)'; \
1635 dist_files=`for file in $$list; do echo $$file; done | \
1636 sed -e "s|^$$srcdirstrip/||;t" \
1637 -e "s|^$$topsrcdirstrip/|$(top_builddir)/|;t"`; \
1638 case $$dist_files in \
1639 */*) $(MKDIR_P) `echo "$$dist_files" | \
1640 sed '/\//!d;s|^|$(distdir)/|;s,/[^/]*$$,,' | \
1641 sort -u` ;; \
1642 esac; \
1643 for file in $$dist_files; do \
1644 if test -f $$file || test -d $$file; then d=.; else d=$(srcdir); fi; \
1645 if test -d $$d/$$file; then \
1646 dir=`echo "/$$file" | sed -e 's,/[^/]*$$,,'`; \
1647 if test -d "$(distdir)/$$file"; then \
1648 find "$(distdir)/$$file" -type d ! -perm -700 -exec chmod u+rwx {} \;; \
1649 fi; \
1650 if test -d $(srcdir)/$$file && test $$d != $(srcdir); then \
1651 cp -fpR $(srcdir)/$$file "$(distdir)$$dir" || exit 1; \
1652 find "$(distdir)/$$file" -type d ! -perm -700 -exec chmod u+rwx {} \;; \
1653 fi; \
1654 cp -fpR $$d/$$file "$(distdir)$$dir" || exit 1; \
1655 else \
1656 test -f "$(distdir)/$$file" \
1657 || cp -p $$d/$$file "$(distdir)/$$file" \
1658 || exit 1; \
1659 fi; \
1660 done
1661 -test -n "$(am__skip_mode_fix)" \
1662 || find "$(distdir)" -type d ! -perm -777 -exec chmod a+rwx {} \; -o \
1663 ! -type d ! -perm -444 -links 1 -exec chmod a+r {} \; -o \
1664 ! -type d ! -perm -400 -exec chmod a+r {} \; -o \
1665 ! -type d ! -perm -444 -exec $(install_sh) -c -m a+r {} {} \; \
1666 || chmod -R a+r "$(distdir)"
1667 dist-gzip: distdir
1668 tardir=$(distdir) && $(am__tar) | GZIP=$(GZIP_ENV) gzip -c >$(distdir).tar.gz
1669 $(am__remove_distdir)
1671 dist-bzip2: distdir
1672 tardir=$(distdir) && $(am__tar) | bzip2 -9 -c >$(distdir).tar.bz2
1673 $(am__remove_distdir)
1675 dist-lzma: distdir
1676 tardir=$(distdir) && $(am__tar) | lzma -9 -c >$(distdir).tar.lzma
1677 $(am__remove_distdir)
1679 dist-xz: distdir
1680 tardir=$(distdir) && $(am__tar) | xz -c >$(distdir).tar.xz
1681 $(am__remove_distdir)
1683 dist-tarZ: distdir
1684 tardir=$(distdir) && $(am__tar) | compress -c >$(distdir).tar.Z
1685 $(am__remove_distdir)
1687 dist-shar: distdir
1688 shar $(distdir) | GZIP=$(GZIP_ENV) gzip -c >$(distdir).shar.gz
1689 $(am__remove_distdir)
1691 dist-zip: distdir
1692 -rm -f $(distdir).zip
1693 zip -rq $(distdir).zip $(distdir)
1694 $(am__remove_distdir)
1696 dist dist-all: distdir
1697 tardir=$(distdir) && $(am__tar) | GZIP=$(GZIP_ENV) gzip -c >$(distdir).tar.gz
1698 $(am__remove_distdir)
1700 # This target untars the dist file and tries a VPATH configuration. Then
1701 # it guarantees that the distribution is self-contained by making another
1702 # tarfile.
1703 distcheck: dist
1704 case '$(DIST_ARCHIVES)' in \
1705 *.tar.gz*) \
1706 GZIP=$(GZIP_ENV) gunzip -c $(distdir).tar.gz | $(am__untar) ;;\
1707 *.tar.bz2*) \
1708 bunzip2 -c $(distdir).tar.bz2 | $(am__untar) ;;\
1709 *.tar.lzma*) \
1710 unlzma -c $(distdir).tar.lzma | $(am__untar) ;;\
1711 *.tar.xz*) \
1712 xz -dc $(distdir).tar.xz | $(am__untar) ;;\
1713 *.tar.Z*) \
1714 uncompress -c $(distdir).tar.Z | $(am__untar) ;;\
1715 *.shar.gz*) \
1716 GZIP=$(GZIP_ENV) gunzip -c $(distdir).shar.gz | unshar ;;\
1717 *.zip*) \
1718 unzip $(distdir).zip ;;\
1719 esac
1720 chmod -R a-w $(distdir); chmod a+w $(distdir)
1721 mkdir $(distdir)/_build
1722 mkdir $(distdir)/_inst
1723 chmod a-w $(distdir)
1724 test -d $(distdir)/_build || exit 0; \
1725 dc_install_base=`$(am__cd) $(distdir)/_inst && pwd | sed -e 's,^[^:\\/]:[\\/],/,'` \
1726 && dc_destdir="$${TMPDIR-/tmp}/am-dc-$$$$/" \
1727 && am__cwd=`pwd` \
1728 && $(am__cd) $(distdir)/_build \
1729 && ../configure --srcdir=.. --prefix="$$dc_install_base" \
1730 $(DISTCHECK_CONFIGURE_FLAGS) \
1731 && $(MAKE) $(AM_MAKEFLAGS) \
1732 && $(MAKE) $(AM_MAKEFLAGS) dvi \
1733 && $(MAKE) $(AM_MAKEFLAGS) check \
1734 && $(MAKE) $(AM_MAKEFLAGS) install \
1735 && $(MAKE) $(AM_MAKEFLAGS) installcheck \
1736 && $(MAKE) $(AM_MAKEFLAGS) uninstall \
1737 && $(MAKE) $(AM_MAKEFLAGS) distuninstallcheck_dir="$$dc_install_base" \
1738 distuninstallcheck \
1739 && chmod -R a-w "$$dc_install_base" \
1740 && ({ \
1741 (cd ../.. && umask 077 && mkdir "$$dc_destdir") \
1742 && $(MAKE) $(AM_MAKEFLAGS) DESTDIR="$$dc_destdir" install \
1743 && $(MAKE) $(AM_MAKEFLAGS) DESTDIR="$$dc_destdir" uninstall \
1744 && $(MAKE) $(AM_MAKEFLAGS) DESTDIR="$$dc_destdir" \
1745 distuninstallcheck_dir="$$dc_destdir" distuninstallcheck; \
1746 } || { rm -rf "$$dc_destdir"; exit 1; }) \
1747 && rm -rf "$$dc_destdir" \
1748 && $(MAKE) $(AM_MAKEFLAGS) dist \
1749 && rm -rf $(DIST_ARCHIVES) \
1750 && $(MAKE) $(AM_MAKEFLAGS) distcleancheck \
1751 && cd "$$am__cwd" \
1752 || exit 1
1753 $(am__remove_distdir)
1754 @(echo "$(distdir) archives ready for distribution: "; \
1755 list='$(DIST_ARCHIVES)'; for i in $$list; do echo $$i; done) | \
1756 sed -e 1h -e 1s/./=/g -e 1p -e 1x -e '$$p' -e '$$x'
1757 distuninstallcheck:
1758 @$(am__cd) '$(distuninstallcheck_dir)' \
1759 && test `$(distuninstallcheck_listfiles) | wc -l` -le 1 \
1760 || { echo "ERROR: files left after uninstall:" ; \
1761 if test -n "$(DESTDIR)"; then \
1762 echo " (check DESTDIR support)"; \
1763 fi ; \
1764 $(distuninstallcheck_listfiles) ; \
1765 exit 1; } >&2
1766 distcleancheck: distclean
1767 @if test '$(srcdir)' = . ; then \
1768 echo "ERROR: distcleancheck can only run from a VPATH build" ; \
1769 exit 1 ; \
1771 @test `$(distcleancheck_listfiles) | wc -l` -eq 0 \
1772 || { echo "ERROR: files left in build directory after distclean:" ; \
1773 $(distcleancheck_listfiles) ; \
1774 exit 1; } >&2
1775 check-am: all-am
1776 $(MAKE) $(AM_MAKEFLAGS) $(check_LTLIBRARIES) $(check_PROGRAMS)
1777 $(MAKE) $(AM_MAKEFLAGS) check-TESTS
1778 check: check-am
1779 all-am: Makefile $(LTLIBRARIES) $(PROGRAMS) $(MANS) $(DATA) $(HEADERS) \
1780 config.h
1781 install-binPROGRAMS: install-libLTLIBRARIES
1783 installdirs:
1784 for dir in "$(DESTDIR)$(libdir)" "$(DESTDIR)$(bindir)" "$(DESTDIR)$(man1dir)" "$(DESTDIR)$(pkgconfigdir)" "$(DESTDIR)$(library_includedir)"; do \
1785 test -z "$$dir" || $(MKDIR_P) "$$dir"; \
1786 done
1787 install: install-am
1788 install-exec: install-exec-am
1789 install-data: install-data-am
1790 uninstall: uninstall-am
1792 install-am: all-am
1793 @$(MAKE) $(AM_MAKEFLAGS) install-exec-am install-data-am
1795 installcheck: installcheck-am
1796 install-strip:
1797 $(MAKE) $(AM_MAKEFLAGS) INSTALL_PROGRAM="$(INSTALL_STRIP_PROGRAM)" \
1798 install_sh_PROGRAM="$(INSTALL_STRIP_PROGRAM)" INSTALL_STRIP_FLAG=-s \
1799 `test -z '$(STRIP)' || \
1800 echo "INSTALL_PROGRAM_ENV=STRIPPROG='$(STRIP)'"` install
1801 mostlyclean-generic:
1802 -test -z "$(TEST_LOGS)" || rm -f $(TEST_LOGS)
1803 -test -z "$(TEST_LOGS_TMP)" || rm -f $(TEST_LOGS_TMP)
1804 -test -z "$(TEST_SUITE_HTML)" || rm -f $(TEST_SUITE_HTML)
1805 -test -z "$(TEST_SUITE_LOG)" || rm -f $(TEST_SUITE_LOG)
1807 clean-generic:
1809 distclean-generic:
1810 -test -z "$(CONFIG_CLEAN_FILES)" || rm -f $(CONFIG_CLEAN_FILES)
1811 -test . = "$(srcdir)" || test -z "$(CONFIG_CLEAN_VPATH_FILES)" || rm -f $(CONFIG_CLEAN_VPATH_FILES)
1812 -rm -f bin/$(am__dirstamp)
1813 -rm -f jellyfish/$(DEPDIR)/$(am__dirstamp)
1814 -rm -f jellyfish/$(am__dirstamp)
1815 -rm -f unit_tests/$(DEPDIR)/$(am__dirstamp)
1816 -rm -f unit_tests/$(am__dirstamp)
1817 -rm -f unit_tests/gtest/src/$(DEPDIR)/$(am__dirstamp)
1818 -rm -f unit_tests/gtest/src/$(am__dirstamp)
1820 maintainer-clean-generic:
1821 @echo "This command is intended for maintainers to use"
1822 @echo "it deletes files that may require special tools to rebuild."
1823 clean: clean-am
1825 clean-am: clean-binPROGRAMS clean-checkLTLIBRARIES clean-checkPROGRAMS \
1826 clean-generic clean-libLTLIBRARIES clean-libtool clean-local \
1827 mostlyclean-am
1829 distclean: distclean-am
1830 -rm -f $(am__CONFIG_DISTCLEAN_FILES)
1831 -rm -rf jellyfish/$(DEPDIR) unit_tests/$(DEPDIR) unit_tests/gtest/src/$(DEPDIR)
1832 -rm -f Makefile
1833 distclean-am: clean-am distclean-compile distclean-generic \
1834 distclean-hdr distclean-libtool distclean-tags
1836 dvi: dvi-am
1838 dvi-am:
1840 html: html-am
1842 html-am:
1844 info: info-am
1846 info-am:
1848 install-data-am: install-library_includeHEADERS install-man \
1849 install-pkgconfigDATA
1851 install-dvi: install-dvi-am
1853 install-dvi-am:
1855 install-exec-am: install-binPROGRAMS install-libLTLIBRARIES
1857 install-html: install-html-am
1859 install-html-am:
1861 install-info: install-info-am
1863 install-info-am:
1865 install-man: install-man1
1867 install-pdf: install-pdf-am
1869 install-pdf-am:
1871 install-ps: install-ps-am
1873 install-ps-am:
1875 installcheck-am:
1877 maintainer-clean: maintainer-clean-am
1878 -rm -f $(am__CONFIG_DISTCLEAN_FILES)
1879 -rm -rf $(top_srcdir)/autom4te.cache
1880 -rm -rf jellyfish/$(DEPDIR) unit_tests/$(DEPDIR) unit_tests/gtest/src/$(DEPDIR)
1881 -rm -f Makefile
1882 maintainer-clean-am: distclean-am maintainer-clean-generic
1884 mostlyclean: mostlyclean-am
1886 mostlyclean-am: mostlyclean-compile mostlyclean-generic \
1887 mostlyclean-libtool
1889 pdf: pdf-am
1891 pdf-am:
1893 ps: ps-am
1895 ps-am:
1897 uninstall-am: uninstall-binPROGRAMS uninstall-libLTLIBRARIES \
1898 uninstall-library_includeHEADERS uninstall-man \
1899 uninstall-pkgconfigDATA
1901 uninstall-man: uninstall-man1
1903 .MAKE: all check-am check-html install-am install-strip recheck \
1904 recheck-html
1906 .PHONY: CTAGS GTAGS all all-am am--refresh check check-TESTS check-am \
1907 check-html clean clean-binPROGRAMS clean-checkLTLIBRARIES \
1908 clean-checkPROGRAMS clean-generic clean-libLTLIBRARIES \
1909 clean-libtool clean-local ctags dist dist-all dist-bzip2 \
1910 dist-gzip dist-lzma dist-shar dist-tarZ dist-xz dist-zip \
1911 distcheck distclean distclean-compile distclean-generic \
1912 distclean-hdr distclean-libtool distclean-tags distcleancheck \
1913 distdir distuninstallcheck dvi dvi-am html html-am info \
1914 info-am install install-am install-binPROGRAMS install-data \
1915 install-data-am install-dvi install-dvi-am install-exec \
1916 install-exec-am install-html install-html-am install-info \
1917 install-info-am install-libLTLIBRARIES \
1918 install-library_includeHEADERS install-man install-man1 \
1919 install-pdf install-pdf-am install-pkgconfigDATA install-ps \
1920 install-ps-am install-strip installcheck installcheck-am \
1921 installdirs maintainer-clean maintainer-clean-generic \
1922 mostlyclean mostlyclean-compile mostlyclean-generic \
1923 mostlyclean-libtool pdf pdf-am ps ps-am recheck recheck-html \
1924 tags uninstall uninstall-am uninstall-binPROGRAMS \
1925 uninstall-libLTLIBRARIES uninstall-library_includeHEADERS \
1926 uninstall-man uninstall-man1 uninstall-pkgconfigDATA
1928 clean-local: clean-local-check
1929 .PHONY: clean-local-check
1930 clean-local-check:
1931 -cd tests; rm -f seq10m* seq1m* *_0 *_1 *_2 *.md5sum *.histo *.stats *.timing *.query *.dump *.fa
1933 tests/serial_hashing.log: tests/generate_sequence.log
1934 tests/parallel_hashing.log: tests/generate_sequence.log
1935 tests/serial_direct_indexing.log: tests/generate_sequence.log
1936 tests/parallel_direct_indexing.log: tests/generate_sequence.log
1937 tests/multi_file.log: tests/generate_sequence.log
1938 tests/raw_hash.log: tests/generate_sequence.log
1939 tests/from_stream.log: tests/generate_sequence.log
1940 tests/parallel_fastq_hashing.log: tests/generate_fastq_sequence.log
1941 tests/parallel_fastq_sequence_hashing.log: tests/generate_fastq_sequence.log
1942 tests/multi_file_fastq.log: tests/generate_fastq_sequence.log
1943 tests/from_stream_fastq.log: tests/generate_fastq_sequence.log
1944 tests/merge.log: tests/generate_fastq_sequence.log
1945 tests/min_qual.log: tests/generate_fastq_sequence.log
1946 tests/parsers.log: tests/generate_sequence.log
1948 # Tell versions [3.59,3.63) of GNU make to not export all variables.
1949 # Otherwise a system limit (for SysV at least) may be exceeded.
1950 .NOEXPORT: