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base: malacology:3b42fb10b0ff625873adcfc046f8d25b8bb68e2e
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malacology:dev
malacology:main
malacology:12.1.1
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malacology:dev
malacology:main
malacology:12.1.1

2 commits
3b42fb10b0 ... 5e8a7a2520

Author SHA1 Message Date
Kuoi
5e8a7a2520 add: use shell to set env 2023-04-14 02:03:22 +08:00
Kuoi
82b82d9e1d fix: compile all 2023-04-14 02:02:58 +08:00
52 changed files with 33 additions and 11 deletions
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bin/alfsplit
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shell/bap Executable file
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@ -0,0 +1,2 @@
#!/bin/bash
env STADTABL=/usr/share/staden-lg/tables STADUSER=/usr/share/staden-lg/userdata STADHELP=/usr/share/staden-lg/help HELPBAP=/usr/share/staden-lg/help/dap_help BAPHELP=/usr/share/staden-lg/help/BAP.HLP BAPHPNT=/usr/share/staden-lg/help/BAP.PNT BAPMARG=/usr/share/staden-lg/help/BAP.MRG TAGDB=/usr/share/staden-lg/tables/TAGDB /usr/share/staden-lg/bin/bap

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shell/dap Executable file
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@ -0,0 +1,2 @@
#!/bin/bash
env STADTABL=/usr/share/staden-lg/tables STADUSER=/usr/share/staden-lg/userdata STADHELP=/usr/share/staden-lg/help HELPDAP=/usr/share/staden-lg/help/dap_help DAPHELP=/usr/share/staden-lg/help/DAP.HLP DAPHPNT=/usr/share/staden-lg/help/DAP.PNT DAPMARG=/usr/share/staden-lg/help/DAP.MRG TAGDB=/usr/share/staden-lg/tables/TAGDB /usr/share/staden-lg/bin/dap

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shell/mep Executable file
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@ -0,0 +1,2 @@
#!/bin/bash
env STADTABL=/usr/share/staden-lg/tables STADUSER=/usr/share/staden-lg/userdata STADHELP=/usr/share/staden-lg/help HELPMEP=/usr/share/staden-lg/help/dap_help MEPHELP=/usr/share/staden-lg/help/MEP.HLP MEPHPNT=/usr/share/staden-lg/help/MEP.PNT MEPMARG=/usr/share/staden-lg/help/MEP.MRG TAGDB=/usr/share/staden-lg/tables/TAGDB /usr/share/staden-lg/bin/mep

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shell/nipf Executable file
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@ -0,0 +1,2 @@
#!/bin/bash
env STADTABL=/usr/share/staden-lg/tables STADUSER=/usr/share/staden-lg/userdata STADHELP=/usr/share/staden-lg/help HELPNIP=/usr/share/staden-lg/help/dap_help NIPHELP=/usr/share/staden-lg/help/NIP.HLP NIPHPNT=/usr/share/staden-lg/help/NIP.PNT NIPMARG=/usr/share/staden-lg/help/NIP.MRG TAGDB=/usr/share/staden-lg/tables/TAGDB /usr/share/staden-lg/bin/nipf

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shell/sap Executable file
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@ -0,0 +1,2 @@
#!/bin/bash
env STADTABL=/usr/share/staden-lg/tables STADUSER=/usr/share/staden-lg/userdata STADHELP=/usr/share/staden-lg/help HELPSAP=/usr/share/staden-lg/help/dap_help SAPHELP=/usr/share/staden-lg/help/SAP.HLP SAPHPNT=/usr/share/staden-lg/help/SAP.PNT SAPMARG=/usr/share/staden-lg/help/SAP.MRG TAGDB=/usr/share/staden-lg/tables/TAGDB /usr/share/staden-lg/bin/sap

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shell/xbap Executable file
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@ -0,0 +1,2 @@
#!/bin/bash
env STADTABL=/usr/share/staden-lg/tables STADUSER=/usr/share/staden-lg/userdata STADHELP=/usr/share/staden-lg/help HELPBAP=/usr/share/staden-lg/help/dap_help BAPHELP=/usr/share/staden-lg/help/BAP.HLP BAPHPNT=/usr/share/staden-lg/help/BAP.PNT BAPMARG=/usr/share/staden-lg/help/BAP.MRG TAGDB=/usr/share/staden-lg/tables/TAGDB /usr/share/staden-lg/bin/xbap

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shell/xdap Executable file
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@ -0,0 +1,2 @@
#!/bin/bash
env STADTABL=/usr/share/staden-lg/tables STADUSER=/usr/share/staden-lg/userdata STADHELP=/usr/share/staden-lg/help HELPDAP=/usr/share/staden-lg/help/dap_help DAPHELP=/usr/share/staden-lg/help/DAP.HLP DAPHPNT=/usr/share/staden-lg/help/DAP.PNT DAPMARG=/usr/share/staden-lg/help/DAP.MRG TAGDB=/usr/share/staden-lg/tables/TAGDB /usr/share/staden-lg/bin/xdap

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shell/xmep Executable file
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@ -0,0 +1,2 @@
#!/bin/bash
env STADTABL=/usr/share/staden-lg/tables STADUSER=/usr/share/staden-lg/userdata STADHELP=/usr/share/staden-lg/help HELPMEP=/usr/share/staden-lg/help/dap_help MEPHELP=/usr/share/staden-lg/help/MEP.HLP MEPHPNT=/usr/share/staden-lg/help/MEP.PNT MEPMARG=/usr/share/staden-lg/help/MEP.MRG TAGDB=/usr/share/staden-lg/tables/TAGDB /usr/share/staden-lg/bin/xmep

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shell/xsap Executable file
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@ -0,0 +1,2 @@
#!/bin/bash
env STADTABL=/usr/share/staden-lg/tables STADUSER=/usr/share/staden-lg/userdata STADHELP=/usr/share/staden-lg/help HELPSAP=/usr/share/staden-lg/help/dap_help SAPHELP=/usr/share/staden-lg/help/SAP.HLP SAPHPNT=/usr/share/staden-lg/help/SAP.PNT SAPMARG=/usr/share/staden-lg/help/SAP.MRG TAGDB=/usr/share/staden-lg/tables/TAGDB /usr/share/staden-lg/bin/xsap

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src/abi/makefile-alpha
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@ -5,7 +5,8 @@
#
# Programs made by this makefile
#
PROGS = getABISampleName
PROGS = getABISampleName 2rs
all: $(PROGS)
#
# Where the wild things are
@ -26,6 +27,8 @@ LDFLAGS = -g
getABISampleName: getABISampleName.o
$(LD) $(LDFLAGS) -o getABISampleName getABISampleName.o
2rs: 2rs.o
$(LD) $(LDFLAGS) -o 2rs 2rs.o
#
# Special dependencies

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src/cop/makefile-alpha
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@ -6,7 +6,7 @@
# Programs made by this makefile
#
PROGS = cop cop-bap
all: $(PROGS)
#
# Where the wild things are
#

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src/getMCH/makefile-alpha
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@ -23,7 +23,7 @@
# Programs made by this makefile
#
PROGS = getMCH trace2seq
all: $(PROGS)
#
# Where the wild things are
#

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src/indexseqlibs/excludewords.c
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@ -13,7 +13,7 @@ static FILE *out;
static int line_comp(char *ex, char *in, int l)
/*
** Compare exclude line with inline
** Compare exclude line with cinline
*/
{
return strncmp(ex,in+11,l);
@ -28,13 +28,13 @@ static void process()
*/
{
char exline[MAXLINE];
char inline[MAXLINE];
char cinline[MAXLINE];
char *exok, *inok;
int compare;
exok = fgets(exline,MAXLINE,ex);
inok = fgets(inline,MAXLINE,in);
inok = fgets(cinline,MAXLINE,in);
while (exok && inok) {
@ -43,15 +43,15 @@ static void process()
if (compare < 0)
exok = fgets(exline,MAXLINE,ex);
else if (compare > 0) {
fprintf(out,"%s",inline);
inok = fgets(inline,MAXLINE,in);
fprintf(out,"%s",cinline);
inok = fgets(cinline,MAXLINE,in);
} else
inok = fgets(inline,MAXLINE,in);
inok = fgets(cinline,MAXLINE,in);
}
while (inok = fgets(inline,MAXLINE,in))
fprintf(out,"%s",inline);
while (inok = fgets(cinline,MAXLINE,in))
fprintf(out,"%s",cinline);
}

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src/indexseqlibs/makefile-alpha
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@ -2,6 +2,7 @@
# indexseqlibs - Alpha version
#
all: $(PROGS)
#
# Programs need making