diff options
Diffstat (limited to 'make/makeall.unx')
| -rw-r--r-- | make/makeall.unx | 44 |
1 files changed, 24 insertions, 20 deletions
diff --git a/make/makeall.unx b/make/makeall.unx index 5326cab0..fdc924c4 100644 --- a/make/makeall.unx +++ b/make/makeall.unx @@ -1,6 +1,6 @@ # makefile for asntool and ncbi core routines, # -# $Id: makeall.unx,v 6.276 2006/09/14 14:20:19 ucko Exp $ +# $Id: makeall.unx,v 6.286 2007/08/03 12:42:48 lavr Exp $ # # cdromlib data access functions, vibrant, and entrez # SunOS with unbundled ANSI compiler [ make LCL=acc RAN=ranlib CC=acc ] @@ -174,7 +174,7 @@ SRC1e = ncbibs.c wwwutils.c ncbierr.c ncbienv.c ncbifile.c \ asnbufo.c asndebin.c asnenbin.c asngen.c asnio.c asnlex.c \ asnlext.c asnout.c asnprint.c asntypes.c asngenob.c gifgen.c \ togif.c ncbithr.c regex.c tsprintf.c ncbiargs.c tree.c matrix.c \ - ncbi_socket.c ncbi_buffer.c ncbi_core.c ncbi_core_c.c ncbi_util.c \ + ncbi_socket.c ncbi_buffer.c ncbi_types.c ncbi_core.c ncbi_core_c.c ncbi_util.c \ ncbi_priv.c ncbi_ansi_ext.c ncbi_connection.c ncbi_connector.c \ ncbi_connutil.c ncbi_file_connector.c ncbi_heapmgr.c \ ncbi_http_connector.c ncbi_memory_connector.c $(NCBI_LBSM_SRC) \ @@ -187,11 +187,11 @@ SRC1 = ncbimain.c $(SRC1e) SRC2 = objacces.c objalign.c objall.c objbibli.c \ objfeat.c objgen.c objloc.c objmedli.c objpub.c \ - objres.c objseq.c objblock.c objcode.c objsset.c \ + objres.c objscoremat.c objseq.c objblock.c objcode.c objsset.c \ objsub.c objprt.c objfdef.c objalignloc.c \ objpubme.c objmdrs.c objproj.c objgbseq.c objtseq.c objinsdseq.c \ objent2.c ent2api.c pmfapi.c objtax3.c tax3api.c objegkludge.c objentgene.c \ - qblastapi.c vecscnapi.c objmim.c mimapi.c cddapi.c seqport.c \ + objmla2.c mla2api.c qblastapi.c vecscnapi.c objmim.c mimapi.c cddapi.c seqport.c \ sequtil.c prtutil.c simple.c tofasta.c tofile.c tomedlin.c \ valid.c alignmgr.c aliparse.c aliread.c alignval.c sqnutil1.c sqnutil2.c sqnutil3.c \ subutil.c edutil.c asn2ff1.c asn2ff2.c asn2ff3.c asn2ff4.c \ @@ -209,7 +209,7 @@ SRC3 = cdentrez.c cdromlib.c cdnewlib.c casn.c cdconfig.c objentr.c SRC4 = vibbutns.c vibextra.c vibfiles.c vibforms.c \ vibgroup.c viblists.c vibmenus.c vibprmpt.c \ vibsbars.c vibslate.c vibtexts.c \ - vibutils.c vibwndws.c ncbidraw.c \ + vibutils.c vibwndws.c vibmain.c ncbidraw.c \ drawing.c mapping.c picture.c viewer.c \ document.c table.c palette.c diagnost.c image.c \ pictur3d.c prim3d1.c prim3d2.c prim3d3.c \ @@ -246,7 +246,7 @@ SRC22 = corematx.c dvncode.c objmmdb1.c objmmdb2.c objmmdb3.c objcn3d.c \ thrdslor.c thrdslou.c thrdspci.c thrdspea.c thrdspel.c \ thrdspni.c thrdttb0.c thrdttbi.c thrdzsc.c -SRC23 = csim.c db_slist.c dust.c falign.c g_any.c sim2.c sim3.c sim4.c \ +SRC23 = csim.c db_slist.c dust.c blast_dust.c falign.c g_any.c sim2.c sim3.c sim4.c \ simutil.c slist.c sec.c tfuns.c toasn3.c toporg.c \ pobutil.c stsutil.c suggadj.c suggest.c suggslp.c \ blast.c blastutl.c blastool.c blastconcat.c splutil.c gapxdrop.c bandalg0.c bandalg1.c \ @@ -255,7 +255,7 @@ SRC23 = csim.c db_slist.c dust.c falign.c g_any.c sim2.c sim3.c sim4.c \ salign.c salptool.c urkutil.c urkpcc.c urkptpf.c urkepi.c \ urkfltr.c urkdust.c urksigu.c seg.c urkbias.c urkcnsrt.c urktree.c \ pseed3.c pattern1.c impatool.c posit2.c mbalign.c \ - vecscrn.c mblast.c rpsutil.c kappa.c xmlblast.c bxmlobj.c objscoremat.c \ + vecscrn.c mblast.c rpsutil.c kappa.c xmlblast.c bxmlobj.c \ dotseq.c spidey.c motif.c blfmtutl.c SRCCOMPADJ = matrix_frequency_data.c compo_mode_condition.c \ @@ -286,15 +286,17 @@ SRC39 = ideochrow.c humchrom_dat.c mschrom_dat.c ideochrom.c ideoorgs.c \ SRC50 = chartables.c get.c maketables.c pcre.c pcreposix.c study.c -SRC60 = aa_ungapped.c blast_diagnostics.c blast_dust.c blast_engine.c \ +SRC60 = aa_ungapped.c blast_diagnostics.c blast_engine.c \ blast_extend.c blast_filter.c blast_gapalign.c blast_hits.c blast_itree.c \ blast_lookup.c blast_message.c blast_options.c blast_seg.c blast_seqsrc.c \ blast_setup.c blast_stat.c blast_traceback.c blast_util.c blast_sw.c \ gapinfo.c greedy_align.c hspstream_collector.c link_hsps.c lookup_wrap.c \ - mb_lookup.c ncbi_math.c ncbi_std.c pattern.c phi_extend.c phi_lookup.c \ + na_ungapped.c ncbi_math.c ncbi_std.c pattern.c phi_extend.c phi_lookup.c \ lookup_util.c blast_encoding.c blast_psi.c blast_psi_priv.c blast_kappa.c \ matrix_freq_ratios.c blast_hspstream.c blast_parameters.c blast_posit.c \ - phi_gapalign.c blast_program.c blast_query_info.c blast_tune.c + phi_gapalign.c blast_program.c blast_query_info.c blast_tune.c \ + blast_aalookup.c blast_nalookup.c blast_aascan.c blast_nascan.c \ + blast_dynarray.c split_query.c gencode_singleton.c index_ungapped.c SRC61 = blast_api.c blast_format.c blast_input.c blast_mtlock.c \ blast_options_api.c blast_prelim.c blast_returns.c blast_seq.c \ @@ -313,7 +315,7 @@ OBJ1e = ncbibs.o wwwutils.o ncbierr.o ncbienv.o ncbifile.o \ asnbufo.o asndebin.o asnenbin.o asngen.o asnio.o asnlex.o \ asnlext.o asnout.o asnprint.o asntypes.o asngenob.o gifgen.o \ togif.o ncbithrs.o regex.o tsprintf.o ncbiargs.o tree.o matrix.o \ - ncbi_socket.o ncbi_buffer.o ncbi_core.o ncbi_core_c.o ncbi_util.o \ + ncbi_socket.o ncbi_buffer.o ncbi_types.o ncbi_core.o ncbi_core_c.o ncbi_util.o \ ncbi_priv.o ncbi_ansi_ext.o ncbi_connection.o ncbi_connector.o \ ncbi_connutil.o ncbi_file_connector.o ncbi_heapmgr.o \ ncbi_http_connector.o ncbi_memory_connector.o $(NCBI_LBSM_OBJ) \ @@ -326,11 +328,11 @@ OBJ1 = ncbimain.o $(OBJ1e) OBJ2 = objacces.o objalign.o objall.o objbibli.o \ objfeat.o objgen.o objloc.o objmedli.o objpub.o \ - objres.o objseq.o objblock.o objcode.o objsset.o \ + objres.o objscoremat.o objseq.o objblock.o objcode.o objsset.o \ objsub.o objprt.o objfdef.o objalignloc.o \ objpubme.o objmdrs.o objproj.o objgbseq.o objtseq.o objinsdseq.o \ objent2.o ent2api.o pmfapi.o objtax3.o tax3api.o objegkludge.o objentgene.o \ - qblastapi.o vecscnapi.o objmim.o mimapi.o cddapi.o seqport.o \ + objmla2.o mla2api.o qblastapi.o vecscnapi.o objmim.o mimapi.o cddapi.o seqport.o \ sequtil.o prtutil.o simple.o tofasta.o tofile.o tomedlin.o \ valid.o alignmgr.o aliparse.o aliread.o alignval.o sqnutil1.o sqnutil2.o sqnutil3.o \ subutil.o edutil.o asn2ff1.o asn2ff2.o asn2ff3.o asn2ff4.o \ @@ -348,7 +350,7 @@ OBJ3 = cdentrez.o cdromlib.o cdnewlib.o casn.o cdconfig.o objentr.o OBJ4 = vibbutns.o vibextra.o vibfiles.o vibforms.o \ vibgroup.o viblists.o vibmenus.o vibprmpt.o \ vibsbars.o vibslate.o vibtexts.o \ - vibutils.o vibwndws.o ncbidraw.o \ + vibutils.o vibwndws.o vibmain.o ncbidraw.o \ drawing.o mapping.o picture.o viewer.o \ document.o table.o palette.o diagnost.o image.o \ pictur3d.o prim3d1.o prim3d2.o prim3d3.o \ @@ -358,7 +360,7 @@ OBJ4 = vibbutns.o vibextra.o vibfiles.o vibforms.o \ OBJ400 = vibbutns.glo vibextra.glo vibfiles.glo vibforms.glo \ vibgroup.glo viblists.glo vibmenus.glo vibprmpt.glo \ vibsbars.glo vibslate.glo vibtexts.glo \ - vibutils.glo vibwndws.glo ncbidraw.glo \ + vibutils.glo vibwndws.glo vibmain.glo ncbidraw.glo \ drawing.glo mapping.glo picture.glo viewer.glo \ document.glo table.glo palette.glo diagnost.glo image.glo \ pictur3d.glo prim3d1.glo prim3d2.glo prim3d3.glo \ @@ -396,7 +398,7 @@ OBJ22 = corematx.o dvncode.o objmmdb1.o objmmdb2.o objmmdb3.o objcn3d.o \ thrdspni.o thrdttb0.o thrdttbi.o thrdzsc.o -OBJ23 = csim.o db_slist.o dust.o falign.o g_any.o sim2.o sim3.o sim4.o \ +OBJ23 = csim.o db_slist.o dust.o blast_dust.o falign.o g_any.o sim2.o sim3.o sim4.o \ simutil.o slist.o sec.o tfuns.o toasn3.o toporg.o \ pobutil.o stsutil.o suggadj.o suggest.o suggslp.o \ blast.o blastutl.o blastool.o blastconcat.o splutil.o \ @@ -406,7 +408,7 @@ OBJ23 = csim.o db_slist.o dust.o falign.o g_any.o sim2.o sim3.o sim4.o \ salign.o salptool.o urkutil.o urkpcc.o urkptpf.o urkepi.o \ urkfltr.o urkdust.o urksigu.o seg.o urkbias.o urkcnsrt.o urktree.o \ pseed3.o pattern1.o impatool.o posit2.o mbalign.o \ - vecscrn.o mblast.o rpsutil.o kappa.o xmlblast.o bxmlobj.o objscoremat.o \ + vecscrn.o mblast.o rpsutil.o kappa.o xmlblast.o bxmlobj.o \ dotseq.o spidey.o motif.o blfmtutl.o OBJCOMPADJ = matrix_frequency_data.o compo_mode_condition.o \ @@ -442,15 +444,17 @@ OBJ39 = ideochrow.o humchrom_dat.o mschrom_dat.o ideochrom.o ideoorgs.o \ OBJ50 = chartables.o get.o maketables.o pcre.o pcreposix.o study.o -OBJ60 = aa_ungapped.o blast_diagnostics.o blast_dust.o blast_engine.o blast_extend.o \ +OBJ60 = aa_ungapped.o blast_diagnostics.o blast_engine.o blast_extend.o \ blast_filter.o blast_gapalign.o blast_hits.o blast_itree.o blast_lookup.o \ blast_message.o blast_options.o blast_seg.o blast_seqsrc.o blast_sw.o \ blast_setup.o blast_stat.o blast_traceback.o blast_util.o \ gapinfo.o greedy_align.o hspstream_collector.o link_hsps.o lookup_wrap.o \ - mb_lookup.o ncbi_math.o ncbi_std.o pattern.o phi_extend.o phi_lookup.o \ + na_ungapped.o ncbi_math.o ncbi_std.o pattern.o phi_extend.o phi_lookup.o \ lookup_util.o blast_encoding.o blast_psi.o blast_psi_priv.o blast_kappa.o \ matrix_freq_ratios.o blast_hspstream.o blast_parameters.o blast_posit.o \ - phi_gapalign.o blast_program.o blast_query_info.o blast_tune.o + phi_gapalign.o blast_program.o blast_query_info.o blast_tune.o \ + blast_aalookup.o blast_nalookup.o blast_aascan.o blast_nascan.o \ + blast_dynarray.o split_query.o gencode_singleton.o index_ungapped.o OBJ61 = blast_api.o blast_input.o blast_format.o blast_mtlock.o \ blast_options_api.o blast_prelim.o blast_returns.o blast_seq.o \ |