Date: Fri, 4 May 2012 11:25:55 GMT From: Hannes <h2+fbsdports@fsfe.org> To: freebsd-gnats-submit@FreeBSD.org Subject: ports/167571: [new port] biology/seqan Message-ID: <201205041125.q44BPtAU037372@red.freebsd.org> Resent-Message-ID: <201205041130.q44BU3P9090605@freefall.freebsd.org>
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>Number: 167571 >Category: ports >Synopsis: [new port] biology/seqan >Confidential: no >Severity: non-critical >Priority: low >Responsible: freebsd-ports-bugs >State: open >Quarter: >Keywords: >Date-Required: >Class: change-request >Submitter-Id: current-users >Arrival-Date: Fri May 04 11:30:03 UTC 2012 >Closed-Date: >Last-Modified: >Originator: Hannes >Release: FreeBSD9 >Organization: FSFE >Environment: FreeBSD freebsdMACPRO 9.0-RELEASE FreeBSD 9.0-RELEASE #0: Tue Jan 3 07:46:30 UTC 2012 root@farrell.cse.buffalo.edu:/usr/obj/usr/src/sys/GENERIC amd64 >Description: SeqAn is an open source C++ library of efficient algorithms and data structures for the analysis of sequences with the focus on biological data. Our library applies a unique generic design that guarantees high performance, generality, extensibility, and integration with other libraries. SeqAn is easy to use and simplifies the development of new software tools with a minimal loss of performance. >How-To-Repeat: >Fix: rename to .txt and unshar the shar ;) Patch attached with submission follows: # This is a shell archive. Save it in a file, remove anything before # this line, and then unpack it by entering "sh file". Note, it may # create directories; files and directories will be owned by you and # have default permissions. # # This archive contains: # # seqan # seqan/Makefile # seqan/pkg-descr # seqan/distinfo # seqan/pkg-plist # seqan/files # seqan/files/patch-cmake-apps-CMakeLists.txt # seqan/files/patch-cmake-CMakeLists.txt # seqan/pkg-message # echo c - seqan mkdir -p seqan > /dev/null 2>&1 echo x - seqan/Makefile sed 's/^X//' >seqan/Makefile << '0bc92d9525ac789e54e36784e6b88bdb' X# New ports collection makefile for: seqan X# Date created: 3 May 2012 X# Whom: h2 X# X# $FreeBSD$ X# X XPORTNAME= seqan XPORTVERSION= 1.3.1 XCATEGORIES= biology XMASTER_SITES= http://ftp.seqan.de/releases/ X XMAINTAINER= h2+fsbdports@fsfe.org XCOMMENT= C++ Sequence Analysis Library X XLICENSE= BSD GPLv3 XLICENSE_COMB= multi XLICENSE_FILE=${WRKSRC}/seqan/LICENSE XLICENSE_FILE=${WRKSRC}/apps/LICENSE X XUSE_ZIP= YES X XUSE_CMAKE= YES XCMAKE_BUILD_TYPE=Release XCMAKE_SOURCE_PATH=${WRKSRC}/cmake XCMAKE_OUTSOURCE=YES XUSE_PYTHON_BUILD=YES XMAKE_JOB_SAFE= YES X X.include <bsd.port.pre.mk> X X# unsafe workaround because FreeBSD lacks logl and expl X# see "BUGS" in `man 3 math` Xpost-patch: X @${REINPLACE_CMD} -e 's|expl|exp|g' ${WRKSRC}/apps/snp_store/snp_store.h X @${REINPLACE_CMD} -e 's|logl|log|g' ${WRKSRC}/apps/snp_store/snp_store.h X Xpost-install: X @${CAT} pkg-message | sed -e 's|/usr/local|'${PREFIX}'|g' X X.include <bsd.port.post.mk> 0bc92d9525ac789e54e36784e6b88bdb echo x - seqan/pkg-descr sed 's/^X//' >seqan/pkg-descr << 'b4e8fccfe625e12d2ba3d275b5b60480' XSeqAn is an open source C++ library of efficient algorithms Xand data structures for the analysis of sequences with the Xfocus on biological data. The library is licensed under the X3-clause BSD license except the applications which are GPL. X XWWW: http://www.seqan.de b4e8fccfe625e12d2ba3d275b5b60480 echo x - seqan/distinfo sed 's/^X//' >seqan/distinfo << '693098415529dedda8b99fad24fa673e' XSHA256 (seqan-1.3.1.zip) = 87eebe73ace9ada2f4664a768ae212d4acc5fb3ce87702709c3d15bf2d153aeb XSIZE (seqan-1.3.1.zip) = 8787521 693098415529dedda8b99fad24fa673e echo x - seqan/pkg-plist sed 's/^X//' >seqan/pkg-plist << 'c2d0b767f4af5a77aa847e7b4e826c70' Xbin/dfi Xbin/insegt Xbin/mason Xbin/micro_razers Xbin/pair_align Xbin/param_chooser Xbin/rabema Xbin/razers Xbin/razers2 Xbin/rep_sep Xbin/sak Xbin/seqan_tcoffee Xbin/seqcons Xbin/snp_store Xbin/splazers Xbin/stellar Xbin/tree_recon Xinclude/seqan.h Xinclude/seqan/align.h Xinclude/seqan/align/align_algorithms.h Xinclude/seqan/align/align_base.h Xinclude/seqan/align/align_cols_base.h Xinclude/seqan/align/align_dynprog.h Xinclude/seqan/align/align_generated_forwards.h Xinclude/seqan/align/align_hirschberg.h Xinclude/seqan/align/align_iterator_base.h Xinclude/seqan/align/align_local_dynprog.h Xinclude/seqan/align/align_local_dynprog_banded.h Xinclude/seqan/align/align_myers.h Xinclude/seqan/align/align_trace.h Xinclude/seqan/align/gaps_array.h Xinclude/seqan/align/gaps_base.h Xinclude/seqan/align/gaps_iterator_base.h Xinclude/seqan/align/gaps_sumlist.h Xinclude/seqan/align/hirschberg_set.h Xinclude/seqan/align/matrix_base.h Xinclude/seqan/basic.h Xinclude/seqan/basic/basic_aggregates.h Xinclude/seqan/basic/basic_allocator_chunkpool.h Xinclude/seqan/basic/basic_allocator_interface.h Xinclude/seqan/basic/basic_allocator_multipool.h Xinclude/seqan/basic/basic_allocator_simple.h Xinclude/seqan/basic/basic_allocator_singlepool.h Xinclude/seqan/basic/basic_allocator_to_std.h Xinclude/seqan/basic/basic_alphabet_interface.h Xinclude/seqan/basic/basic_alphabet_interface2.h Xinclude/seqan/basic/basic_alphabet_simple.h Xinclude/seqan/basic/basic_alphabet_simple_tabs.h Xinclude/seqan/basic/basic_alphabet_trait_basic.h Xinclude/seqan/basic/basic_compare.h Xinclude/seqan/basic/basic_converter.h Xinclude/seqan/basic/basic_counted_ptr.h Xinclude/seqan/basic/basic_debug.h Xinclude/seqan/basic/basic_definition.h Xinclude/seqan/basic/basic_forwards.h Xinclude/seqan/basic/basic_generated_forwards.h Xinclude/seqan/basic/basic_holder.h Xinclude/seqan/basic/basic_holder_dynamic.h Xinclude/seqan/basic/basic_host.h Xinclude/seqan/basic/basic_iterator.h Xinclude/seqan/basic/basic_iterator_adapt_std.h Xinclude/seqan/basic/basic_iterator_adaptor.h Xinclude/seqan/basic/basic_iterator_base.h Xinclude/seqan/basic/basic_iterator_position.h Xinclude/seqan/basic/basic_iterator_simple.h Xinclude/seqan/basic/basic_logvalue.h Xinclude/seqan/basic/basic_metaprogramming.h Xinclude/seqan/basic/basic_operator.h Xinclude/seqan/basic/basic_parallelism.h Xinclude/seqan/basic/basic_pointer.h Xinclude/seqan/basic/basic_profchar.h Xinclude/seqan/basic/basic_profile.h Xinclude/seqan/basic/basic_proxy.h Xinclude/seqan/basic/basic_sse2.h Xinclude/seqan/basic/basic_tag.h Xinclude/seqan/basic/basic_testing.h Xinclude/seqan/basic/basic_transport.h Xinclude/seqan/basic/basic_type.h Xinclude/seqan/basic/basic_volatile_ptr.h Xinclude/seqan/blast.h Xinclude/seqan/blast/blast_base.h Xinclude/seqan/blast/blast_generated_forwards.h Xinclude/seqan/blast/blast_hit.h Xinclude/seqan/blast/blast_hit_iterator.h Xinclude/seqan/blast/blast_hsp.h Xinclude/seqan/blast/blast_hsp_iterator.h Xinclude/seqan/blast/blast_iterator.h Xinclude/seqan/blast/blast_parsing.h Xinclude/seqan/blast/blast_report.h Xinclude/seqan/blast/blast_run.h Xinclude/seqan/blast/blast_stream_hit.h Xinclude/seqan/blast/blast_stream_hit_iterator.h Xinclude/seqan/blast/blast_stream_hsp_iterator.h Xinclude/seqan/blast/blast_stream_report.h Xinclude/seqan/chaining.h Xinclude/seqan/chaining/chain_base.h Xinclude/seqan/chaining/chain_generic.h Xinclude/seqan/chaining/chain_meta_fragment.h Xinclude/seqan/chaining/chain_point.h Xinclude/seqan/chaining/chain_wrapper_point.h Xinclude/seqan/chaining/chaining_generated_forwards.h Xinclude/seqan/chaining/fragment.h Xinclude/seqan/chaining/geom_distribution.h Xinclude/seqan/chaining/range_max_tree.h Xinclude/seqan/chaining/range_tree.h Xinclude/seqan/chaining/rmt_base.h Xinclude/seqan/chaining/rmt_common_algos.h Xinclude/seqan/chaining/rmt_compl_algos.h Xinclude/seqan/chaining/rmt_def_algos.h Xinclude/seqan/chaining/rmt_skip_base_element.h Xinclude/seqan/chaining/rmt_skip_element.h Xinclude/seqan/chaining/rt_base.h Xinclude/seqan/chaining/rt_common_algos.h Xinclude/seqan/chaining/rt_impl.h Xinclude/seqan/chaining/rt_skip_base_element.h Xinclude/seqan/chaining/rt_skip_element.h Xinclude/seqan/chaining/rt_sl_base.h Xinclude/seqan/chaining/rt_sl_compl_algos.h Xinclude/seqan/chaining/rt_sl_def_algos.h Xinclude/seqan/chaining/rt_sl_impl.h Xinclude/seqan/chaining/score_chain.h Xinclude/seqan/chaining/score_chain_sop.h Xinclude/seqan/chaining/score_manhattan.h Xinclude/seqan/chaining/score_zero.h Xinclude/seqan/chaining/skip_base_element.h Xinclude/seqan/chaining/skip_element.h Xinclude/seqan/chaining/skip_list.h Xinclude/seqan/chaining/skip_list_base.h Xinclude/seqan/chaining/skip_list_dynamic.h Xinclude/seqan/chaining/skip_list_impl.h Xinclude/seqan/chaining/skip_list_iterator.h Xinclude/seqan/chaining/skip_list_type.h Xinclude/seqan/chaining/skip_pool_alloc.h Xinclude/seqan/chaining/tree_chain.h Xinclude/seqan/chaining/tree_chain_sop.h Xinclude/seqan/chaining/tree_chain_utils.h Xinclude/seqan/consensus.h Xinclude/seqan/consensus/consensus_base.h Xinclude/seqan/consensus/consensus_generated_forwards.h Xinclude/seqan/consensus/consensus_library.h Xinclude/seqan/consensus/consensus_realign.h Xinclude/seqan/consensus/consensus_score.h Xinclude/seqan/file.h Xinclude/seqan/file/chunk_collector.h Xinclude/seqan/file/cstream.h Xinclude/seqan/file/file_array.h Xinclude/seqan/file/file_base.h Xinclude/seqan/file/file_cstyle.h Xinclude/seqan/file/file_filereader.h Xinclude/seqan/file/file_filereaderiterator.h Xinclude/seqan/file/file_format.h Xinclude/seqan/file/file_format_cgviz.h Xinclude/seqan/file/file_format_embl.h Xinclude/seqan/file/file_format_fasta.h Xinclude/seqan/file/file_format_fasta_align.h Xinclude/seqan/file/file_format_genbank.h Xinclude/seqan/file/file_format_guess.h Xinclude/seqan/file/file_format_mmap.h Xinclude/seqan/file/file_format_raw.h Xinclude/seqan/file/file_forwards.h Xinclude/seqan/file/file_generated_forwards.h Xinclude/seqan/file/file_page.h Xinclude/seqan/file/file_page_raid0.h Xinclude/seqan/file/meta.h Xinclude/seqan/file/stream.h Xinclude/seqan/file/stream_algorithms.h Xinclude/seqan/file/string_external.h Xinclude/seqan/file/string_mmap.h Xinclude/seqan/find.h Xinclude/seqan/find/find_abndm.h Xinclude/seqan/find/find_ahocorasick.h Xinclude/seqan/find/find_base.h Xinclude/seqan/find/find_begin.h Xinclude/seqan/find/find_bndm.h Xinclude/seqan/find/find_bom.h Xinclude/seqan/find/find_generated_forwards.h Xinclude/seqan/find/find_hamming_simple.h Xinclude/seqan/find/find_horspool.h Xinclude/seqan/find/find_multi.h Xinclude/seqan/find/find_multiple_bfam.h Xinclude/seqan/find/find_multiple_shiftand.h Xinclude/seqan/find/find_myers_ukkonen.h Xinclude/seqan/find/find_pattern_base.h Xinclude/seqan/find/find_pex.h Xinclude/seqan/find/find_score.h Xinclude/seqan/find/find_set_horspool.h Xinclude/seqan/find/find_shiftand.h Xinclude/seqan/find/find_shiftor.h Xinclude/seqan/find/find_simple.h Xinclude/seqan/find/find_wild_shiftand.h Xinclude/seqan/find/find_wumanber.h Xinclude/seqan/find2.h Xinclude/seqan/find2/find2_generated_forwards.h Xinclude/seqan/find2/find_approx_dpsearch.h Xinclude/seqan/find2/find_approx_find_begin.h Xinclude/seqan/find2/find_base.h Xinclude/seqan/find2/find_exact_shiftand.h Xinclude/seqan/find2/find_exact_simple.h Xinclude/seqan/find2/find_finder_default.h Xinclude/seqan/find2/find_hamming_simple.h Xinclude/seqan/find2/find_multiple_exact_simple.h Xinclude/seqan/find2/find_pattern_wild_shiftand.h Xinclude/seqan/find_motif.h Xinclude/seqan/find_motif/em_algorithm.h Xinclude/seqan/find_motif/find_motif_base.h Xinclude/seqan/find_motif/find_motif_epatternbranching.h Xinclude/seqan/find_motif/find_motif_generated_forwards.h Xinclude/seqan/find_motif/find_motif_pms1.h Xinclude/seqan/find_motif/find_motif_pmsp.h Xinclude/seqan/find_motif/find_motif_projection.h Xinclude/seqan/find_motif/frequency_distribution.h Xinclude/seqan/find_motif/profile.h Xinclude/seqan/find_motif/pseudocount_base.h Xinclude/seqan/find_motif/pseudocount_mode_c.h Xinclude/seqan/find_motif/pseudocount_mode_p.h Xinclude/seqan/find_motif/sequence_model_types.h Xinclude/seqan/graph_algorithms.h Xinclude/seqan/graph_algorithms/graph_algorithm.h Xinclude/seqan/graph_algorithms/graph_algorithm_heap_tree.h Xinclude/seqan/graph_algorithms/graph_algorithm_hmm.h Xinclude/seqan/graph_algorithms/graph_algorithm_lis_his.h Xinclude/seqan/graph_algorithms/graph_algorithms_generated_forwards.h Xinclude/seqan/graph_align.h Xinclude/seqan/graph_align/graph_align_banded_gotoh.h Xinclude/seqan/graph_align/graph_align_banded_needleman_wunsch.h Xinclude/seqan/graph_align/graph_align_banded_smith_waterman_clump.h Xinclude/seqan/graph_align/graph_align_base.h Xinclude/seqan/graph_align/graph_align_config.h Xinclude/seqan/graph_align/graph_align_generated_forwards.h Xinclude/seqan/graph_align/graph_align_gotoh.h Xinclude/seqan/graph_align/graph_align_hirschberg.h Xinclude/seqan/graph_align/graph_align_interface.h Xinclude/seqan/graph_align/graph_align_needleman_wunsch.h Xinclude/seqan/graph_align/graph_align_smith_waterman.h Xinclude/seqan/graph_align/graph_align_smith_waterman_clump.h Xinclude/seqan/graph_msa.h Xinclude/seqan/graph_msa/graph_align_tcoffee_base.h Xinclude/seqan/graph_msa/graph_align_tcoffee_distance.h Xinclude/seqan/graph_msa/graph_align_tcoffee_guidetree.h Xinclude/seqan/graph_msa/graph_align_tcoffee_io.h Xinclude/seqan/graph_msa/graph_align_tcoffee_kmer.h Xinclude/seqan/graph_msa/graph_align_tcoffee_library.h Xinclude/seqan/graph_msa/graph_align_tcoffee_msa.h Xinclude/seqan/graph_msa/graph_align_tcoffee_progressive.h Xinclude/seqan/graph_msa/graph_align_tcoffee_refinement.h Xinclude/seqan/graph_msa/graph_msa_generated_forwards.h Xinclude/seqan/graph_types.h Xinclude/seqan/graph_types/graph_base.h Xinclude/seqan/graph_types/graph_drawing.h Xinclude/seqan/graph_types/graph_edgestump.h Xinclude/seqan/graph_types/graph_idmanager.h Xinclude/seqan/graph_types/graph_impl_automaton.h Xinclude/seqan/graph_types/graph_impl_directed.h Xinclude/seqan/graph_types/graph_impl_fragment.h Xinclude/seqan/graph_types/graph_impl_hmm.h Xinclude/seqan/graph_types/graph_impl_oracle.h Xinclude/seqan/graph_types/graph_impl_tree.h Xinclude/seqan/graph_types/graph_impl_trie.h Xinclude/seqan/graph_types/graph_impl_undirected.h Xinclude/seqan/graph_types/graph_impl_wordgraph.h Xinclude/seqan/graph_types/graph_interface.h Xinclude/seqan/graph_types/graph_iterator.h Xinclude/seqan/graph_types/graph_iterator_adjacency.h Xinclude/seqan/graph_types/graph_iterator_bfs.h Xinclude/seqan/graph_types/graph_iterator_dfs.h Xinclude/seqan/graph_types/graph_iterator_edge.h Xinclude/seqan/graph_types/graph_iterator_outedge.h Xinclude/seqan/graph_types/graph_iterator_vertex.h Xinclude/seqan/graph_types/graph_property.h Xinclude/seqan/graph_types/graph_types_generated_forwards.h Xinclude/seqan/graph_types/graph_utility_parsing.h Xinclude/seqan/index.h Xinclude/seqan/index/find_index.h Xinclude/seqan/index/find_index_approx.h Xinclude/seqan/index/find_index_esa.h Xinclude/seqan/index/find_index_qgram.h Xinclude/seqan/index/find_quasar.h Xinclude/seqan/index/find_swift.h Xinclude/seqan/index/index_base.h Xinclude/seqan/index/index_bwt.h Xinclude/seqan/index/index_childtab.h Xinclude/seqan/index/index_dfi.h Xinclude/seqan/index/index_esa_algs.h Xinclude/seqan/index/index_esa_algs_multi.h Xinclude/seqan/index/index_esa_base.h Xinclude/seqan/index/index_esa_drawing.h Xinclude/seqan/index/index_esa_stree.h Xinclude/seqan/index/index_generated_forwards.h Xinclude/seqan/index/index_lcp.h Xinclude/seqan/index/index_lcp_tree.h Xinclude/seqan/index/index_manual_forwards.h Xinclude/seqan/index/index_pizzachili.h Xinclude/seqan/index/index_pizzachili_find.h Xinclude/seqan/index/index_pizzachili_string.h Xinclude/seqan/index/index_qgram.h Xinclude/seqan/index/index_qgram_openaddressing.h Xinclude/seqan/index/index_sa_btree.h Xinclude/seqan/index/index_sa_bwtwalk.h Xinclude/seqan/index/index_sa_lss.h Xinclude/seqan/index/index_sa_mm.h Xinclude/seqan/index/index_sa_qsort.h Xinclude/seqan/index/index_shawarma.h Xinclude/seqan/index/index_shims.h Xinclude/seqan/index/index_skew3.h Xinclude/seqan/index/index_skew7.h Xinclude/seqan/index/index_skew7_multi.h Xinclude/seqan/index/index_wotd.h Xinclude/seqan/index/pipe_merger3.h Xinclude/seqan/index/pipe_merger7.h Xinclude/seqan/index/pizzachili_api.h Xinclude/seqan/index/pump_extender3.h Xinclude/seqan/index/pump_extender7.h Xinclude/seqan/index/pump_lcp_core.h Xinclude/seqan/index/pump_separator7.h Xinclude/seqan/index/radix.h Xinclude/seqan/index/repeat_base.h Xinclude/seqan/index/shape_base.h Xinclude/seqan/index/shape_gapped.h Xinclude/seqan/index/shape_onegapped.h Xinclude/seqan/index/shape_predefined.h Xinclude/seqan/index/shape_threshold.h Xinclude/seqan/map.h Xinclude/seqan/map/map_adapter_stl.h Xinclude/seqan/map/map_base.h Xinclude/seqan/map/map_chooser.h Xinclude/seqan/map/map_generated_forwards.h Xinclude/seqan/map/map_skiplist.h Xinclude/seqan/map/map_vector.h Xinclude/seqan/map/sumlist.h Xinclude/seqan/map/sumlist_mini.h Xinclude/seqan/map/sumlist_skip.h Xinclude/seqan/misc/edit_environment.h Xinclude/seqan/misc/misc_base.h Xinclude/seqan/misc/misc_cmdparser.h Xinclude/seqan/misc/misc_dequeue.h Xinclude/seqan/misc/misc_generated_forwards.h Xinclude/seqan/misc/misc_interval_tree.h Xinclude/seqan/misc/misc_long_word.h Xinclude/seqan/misc/misc_map.h Xinclude/seqan/misc/misc_parsing.h Xinclude/seqan/misc/misc_random.h Xinclude/seqan/misc/misc_set.h Xinclude/seqan/misc/misc_svg.h Xinclude/seqan/misc/priority_type_base.h Xinclude/seqan/misc/priority_type_heap.h Xinclude/seqan/modifier.h Xinclude/seqan/modifier/modifier_alphabet.h Xinclude/seqan/modifier/modifier_alphabet_expansion.h Xinclude/seqan/modifier/modifier_functors.h Xinclude/seqan/modifier/modifier_generated_forwards.h Xinclude/seqan/modifier/modifier_iterator.h Xinclude/seqan/modifier/modifier_reverse.h Xinclude/seqan/modifier/modifier_shortcuts.h Xinclude/seqan/modifier/modifier_string.h Xinclude/seqan/modifier/modifier_view.h Xinclude/seqan/parallel.h Xinclude/seqan/parallel/parallel_atomic_misc.h Xinclude/seqan/parallel/parallel_atomic_primitives.h Xinclude/seqan/parallel/parallel_generated_forwards.h Xinclude/seqan/parallel/parallel_macros.h Xinclude/seqan/pipe.h Xinclude/seqan/pipe/pipe_base.h Xinclude/seqan/pipe/pipe_caster.h Xinclude/seqan/pipe/pipe_counter.h Xinclude/seqan/pipe/pipe_echoer.h Xinclude/seqan/pipe/pipe_edit_environment.h Xinclude/seqan/pipe/pipe_filter.h Xinclude/seqan/pipe/pipe_generated_forwards.h Xinclude/seqan/pipe/pipe_iterator.h Xinclude/seqan/pipe/pipe_joiner.h Xinclude/seqan/pipe/pipe_namer.h Xinclude/seqan/pipe/pipe_sampler.h Xinclude/seqan/pipe/pipe_shifter.h Xinclude/seqan/pipe/pipe_source.h Xinclude/seqan/pipe/pipe_tupler.h Xinclude/seqan/pipe/pool_base.h Xinclude/seqan/pipe/pool_mapper.h Xinclude/seqan/pipe/pool_sorter.h Xinclude/seqan/platform.h Xinclude/seqan/platform/platform_gcc.h Xinclude/seqan/platform/platform_generated_forwards.h Xinclude/seqan/platform/platform_mingw.h Xinclude/seqan/platform/platform_solaris.h Xinclude/seqan/platform/platform_windows.h Xinclude/seqan/random.h Xinclude/seqan/random/ext_MersenneTwister.h 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Xshare/seqan/gapped_params/results_N53_L.dat Xshare/seqan/gapped_params/results_N54_H.dat Xshare/seqan/gapped_params/results_N54_L.dat Xshare/seqan/gapped_params/results_N55_H.dat Xshare/seqan/gapped_params/results_N55_L.dat Xshare/seqan/gapped_params/results_N56_H.dat Xshare/seqan/gapped_params/results_N56_L.dat Xshare/seqan/gapped_params/results_N57_H.dat Xshare/seqan/gapped_params/results_N57_L.dat Xshare/seqan/gapped_params/results_N58_H.dat Xshare/seqan/gapped_params/results_N58_L.dat Xshare/seqan/gapped_params/results_N59_H.dat Xshare/seqan/gapped_params/results_N59_L.dat Xshare/seqan/gapped_params/results_N60_H.dat Xshare/seqan/gapped_params/results_N60_L.dat Xshare/seqan/gapped_params/results_N61_H.dat Xshare/seqan/gapped_params/results_N61_L.dat Xshare/seqan/gapped_params/results_N62_H.dat Xshare/seqan/gapped_params/results_N62_L.dat Xshare/seqan/gapped_params/results_N63_H.dat Xshare/seqan/gapped_params/results_N63_L.dat Xshare/seqan/gapped_params/results_N64_H.dat Xshare/seqan/gapped_params/results_N64_L.dat Xshare/seqan/gapped_params/results_N65_H.dat Xshare/seqan/gapped_params/results_N65_L.dat Xshare/seqan/gapped_params/results_N66_H.dat Xshare/seqan/gapped_params/results_N67_H.dat Xshare/seqan/gapped_params/results_N68_H.dat Xshare/seqan/gapped_params/results_N69_H.dat Xshare/seqan/gapped_params/results_N70_H.dat Xshare/seqan/gapped_params/results_N71_H.dat Xshare/seqan/gapped_params/results_N72_H.dat Xshare/seqan/gapped_params/results_N73_H.dat Xshare/seqan/gapped_params/results_N74_H.dat Xshare/seqan/gapped_params/results_N75_H.dat X@dirrm share/seqan/gapped_params X@dirrm share/seqan/docs X@dirrm share/seqan X@dirrm include/seqan/system X@dirrm include/seqan/store X@dirrm include/seqan/statistics X@dirrm include/seqan/sequence_journaled X@dirrm include/seqan/sequence X@dirrm include/seqan/seeds2 X@dirrm include/seqan/seeds X@dirrm include/seqan/score X@dirrm include/seqan/refinement X@dirrm include/seqan/random X@dirrm include/seqan/platform X@dirrm include/seqan/pipe X@dirrm include/seqan/parallel X@dirrm include/seqan/modifier X@dirrm include/seqan/misc X@dirrm include/seqan/map X@dirrm include/seqan/index X@dirrm include/seqan/graph_types X@dirrm include/seqan/graph_msa X@dirrm include/seqan/graph_align X@dirrm include/seqan/graph_algorithms X@dirrm include/seqan/find_motif X@dirrm include/seqan/find2 X@dirrm include/seqan/find X@dirrm include/seqan/file X@dirrm include/seqan/consensus X@dirrm include/seqan/chaining X@dirrm include/seqan/blast X@dirrm include/seqan/basic X@dirrm include/seqan/align X@dirrm include/seqan c2d0b767f4af5a77aa847e7b4e826c70 echo c - seqan/files mkdir -p seqan/files > /dev/null 2>&1 echo x - seqan/files/patch-cmake-apps-CMakeLists.txt sed 's/^X//' >seqan/files/patch-cmake-apps-CMakeLists.txt << 'e8f5f2ec626c5ad0f06a47678d4bb557' X--- cmake/apps/CMakeLists.txt.orig 2012-05-04 11:12:35.000000000 +0800 X+++ cmake/apps/CMakeLists.txt 2012-05-04 11:23:26.000000000 +0800 X@@ -108,4 +108,4 @@ X X # Install RazerS gapped parameters. X install(DIRECTORY ${SEQAN_LIBRARY}/apps/razers2/gapped_params X- DESTINATION bin) X+ DESTINATION share/seqan) e8f5f2ec626c5ad0f06a47678d4bb557 echo x - seqan/files/patch-cmake-CMakeLists.txt sed 's/^X//' >seqan/files/patch-cmake-CMakeLists.txt << '86b1e5cdb1549c7bd1d49b69e78ae2a6' X--- cmake/CMakeLists.txt.orig 2012-05-04 12:56:23.000000000 +0800 X+++ cmake/CMakeLists.txt 2012-05-04 13:00:03.000000000 +0800 X@@ -146,6 +146,10 @@ X COMPONENT headers) X #message("install(FILES ${HEADER} RENAME seqan${NEW_PATH} DESTINATION include COMPONENT headers)") X endforeach() X+#seqan.h X+install(FILES ${CMAKE_CURRENT_SOURCE_DIR}/../seqan.h X+ DESTINATION include X+ COMPONENT headers) X X ################################################################################ X # Set Compiler Flags 86b1e5cdb1549c7bd1d49b69e78ae2a6 echo x - seqan/pkg-message sed 's/^X//' >seqan/pkg-message << 'f29e7b3a22803482eada786d6c2d408d' Xgapped_params for Razers2 have been installed to X /usr/local/share/seqan/gapped_params X XIf you require these, make sure to set the correct Xpath with --param-dir as Razers2 will not pick them Xup automatically. f29e7b3a22803482eada786d6c2d408d exit >Release-Note: >Audit-Trail: >Unformatted:
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