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revision 1.15, Tue Sep 25 18:45:53 2007 UTC revision 1.30, Mon Dec 22 23:33:47 2008 UTC
# Line 24  Line 24 
24    
25  PERLCGISCRIPTS := $(subst .pl,,$(wildcard *.cgi))  PERLCGISCRIPTS := $(subst .pl,,$(wildcard *.cgi))
26    
27  PERL_LIB = $(wildcard *.pm) \  PERL_LIB = $(wildcard *.pm)
28             $(wildcard WebPage/*.pm) \  
29             $(wildcard WebApp/*.pm) \  #          $(wildcard WebPage/*.pm) \
30             $(wildcard WebApplicationServer/*.pm)  #           $(wildcard WebApp/*.pm) \
31    #           $(wildcard WebApplicationServer/*.pm)
32    
33  WEBPAGES := $(wildcard *.tmpl)  WEBPAGES := $(wildcard *.tmpl)
34    
# Line 38  Line 39 
39          create_import_job.pl import_pipeline.pl imp_build_nr.pl imp_prepare_sims.pl imp_process_sims.pl \          create_import_job.pl import_pipeline.pl imp_build_nr.pl imp_prepare_sims.pl imp_process_sims.pl \
40          imp_merge_sims.pl imp_check_tl_sim_status.pl  imp_finish_tl_sims.pl  \          imp_merge_sims.pl imp_check_tl_sim_status.pl  imp_finish_tl_sims.pl  \
41          imp_salvage.pl imp_submit_tl_sims.pl \          imp_salvage.pl imp_submit_tl_sims.pl \
42          validate_tl_sims.pl          rp_HMM_PFAM_search_on_timelogic.pl rp_PFAM_attribute_generation.pl rp_make_PFAM_HMM_derived_attributes.pl \
43            validate_tl_sims.pl \
44            rp_critica.pl rp_glimmer.pl rp_gen_teach_sims.pl rp_index_attributes.pl \
45            rp_HMM_PFAM_search_on_timelogic.pl rp_PFAM_attribute_generation.pl rp_make_PFAM_HMM_derived_attributes.pl \
46            rp_CELLO_attribute_generation.pl rp_CELLO_search.pl rp_make_CELLO_attributes.pl \
47            rp_PHOBIUS_attribute_generation.pl rp_PHOBIUS_search.pl rp_make_PHOBIUS_attributes.pl \
48            rp_PSORT_attribute_generation.pl rp_run_PSORT_on_genome.pl rp_make_PSORT_attributes.pl \
49            rp_genome_phenotype_attribute_generation.pl rp_make_genome_phenotype_attributes.pl \
50            rp_mw_and_pi_attribute_generation.pl rp_make_mw_and_pi_attributes.pl \
51            rp_similar_to_human_attribute_generation.pl rp_run_blast_against_human.pl rp_make_similar_to_human_attributes.pl \
52            rp_interpro_download_attribute_generation.pl rp_compute_crc64_for_pegs_in_genome.pl rp_make_interpro_download_attributes.pl \
53            get_nmpdr_group.pl reset_stage.pl rp_lustre_finish.pl rp_write_exports.pl \
54            reset-failed-rp.pl \
55            rp_compute_peer_sim_pair.pl rp_request_peer_sims.pl rp_peer_sim_status.pl \
56            show_import_list.pl
57    
58    
59  INST_PERL_LIB = $(foreach var, $(PERL_LIB), $(libdir)/$(PKGNAME)/$(var))  INST_PERL_LIB = $(foreach var, $(PERL_LIB), $(libdir)/$(PKGNAME)/$(var))
# Line 55  Line 70 
70    
71  bin: $(INST_PERL_BIN)  bin: $(INST_PERL_BIN)
72    
73  lib:    $(foreach var, $(PERLCGISCRIPTS), $(cgidir)/$(var)) copy_htaccess $(INST_PERL_LIB) $(foreach var, $(WEBPAGES), $(cgidir)/Html/$(var))  lib:    $(foreach var, $(PERLCGISCRIPTS), $(cgidir)/$(var)) copy_htaccess $(INST_PERL_LIB) $(foreach var, $(WEBPAGES), $(cgidir)/Html/$(var)) fix_web_perms
74    
75    fix_web_perms:
76    ifneq (,$(findstring public_html, $(cgidir)))
77            chmod go-w $(cgidir)
78    endif
79    
80  htaccess_src = $(RTROOT)/config/all.htaccess  htaccess_src = $(RTROOT)/config/all.htaccess
81  htaccess_dst = $(cgidir)/.htaccess  htaccess_dst = $(cgidir)/.htaccess
# Line 78  Line 98 
98    
99  $(cgidir)/%: $(TOPDIR)/$(PKGNAME)/% $(TOOL_HDR)  $(cgidir)/%: $(TOPDIR)/$(PKGNAME)/% $(TOOL_HDR)
100          ( cat $(TOOL_HDR) $< > $@; chmod +x $@ )          ( cat $(TOOL_HDR) $< > $@; chmod +x $@ )
101    ifneq (,$(findstring public_html, $(cgidir)))
102            chmod go-w $@
103    endif
104    
105  $(cgidir)/Html/%: $(TOPDIR)/$(PKGNAME)/%  $(cgidir)/Html/%: $(TOPDIR)/$(PKGNAME)/%
106          cp $< $(cgidir)/Html/.          cp $< $(cgidir)/Html/.
# Line 103  Line 126 
126          cp  $< $@          cp  $< $@
127    
128  $(bindir)/%: $(TOPDIR)/$(PKGNAME)/%.pl $(TOOL_HDR)  $(bindir)/%: $(TOPDIR)/$(PKGNAME)/%.pl $(TOOL_HDR)
         perl -I.. -c $<  
129          ( cat $(TOOL_HDR) $< > $@; chmod +x $@ )          ( cat $(TOOL_HDR) $< > $@; chmod +x $@ )
130    
131    #       perl -I.. -c $<
132    

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