Description: add patch to introduce PATH_MAX if missing Some archs, such as Hurd, do not set PATH_MAX. This patch introduces that with a default value if it is not set before. Author: Sascha Steinbiss Last-Update: 2020-02-08 --- /dev/null +++ b/src/include/pathmax.h @@ -0,0 +1,3 @@ +#ifndef PATH_MAX +# define PATH_MAX 8192 +#endif --- a/src/include/virtualdef.h +++ b/src/include/virtualdef.h @@ -9,6 +9,8 @@ #include "alphadef.h" #include "multidef.h" +#include "pathmax.h" + /* This file defines the datatype \texttt{virtualtree} which stores a virtual suffix tree. --- a/src/kurtz-basic/filehandle.c +++ b/src/kurtz-basic/filehandle.c @@ -18,6 +18,8 @@ #include "debugdef.h" #include "failures.h" +#include "pathmax.h" + //} /*EE --- a/src/kurtz-basic/multiseq-adv.c +++ b/src/kurtz-basic/multiseq-adv.c @@ -26,6 +26,8 @@ #include "genfile.h" #include "cmp-tabdef.h" +#include "pathmax.h" + #include "compfilenm.pr" #include "dstrdup.pr" #include "filehandle.pr" --- a/src/kurtz-basic/readmulti.c +++ b/src/kurtz-basic/readmulti.c @@ -15,6 +15,8 @@ #include "alphadef.h" #include "fhandledef.h" +#include "pathmax.h" + #include "filehandle.pr" #include "alphabet.pr" #include "checkgzip.pr" --- a/src/kurtz-basic/readvirt.c +++ b/src/kurtz-basic/readvirt.c @@ -32,6 +32,8 @@ #include "codondef.h" #include "megabytes.h" +#include "pathmax.h" + #include "dstrdup.pr" #include "compfilenm.pr" #include "multiseq.pr" --- a/src/kurtz-basic/scanpaths.c +++ b/src/kurtz-basic/scanpaths.c @@ -10,6 +10,8 @@ #include "fhandledef.h" #include "file.h" +#include "pathmax.h" + #include "filehandle.pr" #include "dstrdup.pr" --- a/src/kurtz/outindextab.c +++ b/src/kurtz/outindextab.c @@ -8,6 +8,8 @@ #include "errordef.h" #include "fhandledef.h" +#include "pathmax.h" + #include "filehandle.pr" Sint outindextab(const char *indexname, --- a/src/Mkvtree/inputdef.h +++ b/src/Mkvtree/inputdef.h @@ -4,6 +4,7 @@ #include #include "types.h" #include "virtualdef.h" +#include "pathmax.h" #define ALLDEMANDTABS (LCPTAB | SUFTAB | SKPTAB | BWTTAB | BCKTAB |\ TISTAB | OISTAB | STITAB | STI1TAB | ISOTAB | CLDTAB) --- a/src/Mkvtree/mapcfrcrf.c +++ b/src/Mkvtree/mapcfrcrf.c @@ -15,6 +15,8 @@ #include "safescpy.pr" #include "filehandle.pr" +#include "pathmax.h" + /* This file contains the function makereversetable for the construction of the reverse tables in the affix affix array data structure --- a/src/Mkvtree/mkcfr.c +++ b/src/Mkvtree/mkcfr.c @@ -18,6 +18,8 @@ #include "safescpy.pr" #include "filehandle.pr" +#include "pathmax.h" + /* This file contains the function makereversetable for the construction of the reverse tables in the affix affix array data structure --- a/src/Mkvtree/mkdna6idx.c +++ b/src/Mkvtree/mkdna6idx.c @@ -30,6 +30,8 @@ #include "mkvprocess.pr" #include "mkvtree.pr" +#include "pathmax.h" + #ifndef NOLICENSEMANAGER #include "licensemanager.h" #endif --- a/src/Mkvtree/mkrcidx.c +++ b/src/Mkvtree/mkrcidx.c @@ -30,6 +30,8 @@ #include "mkvprocess.pr" #include "mkvtree.pr" +#include "pathmax.h" + static void showonstdout(char *s) { printf("%s\n",s); --- a/src/Mkvtree/mkvinput.c +++ b/src/Mkvtree/mkvinput.c @@ -20,6 +20,8 @@ #include "parsemultiform.pr" #include "reverse.pr" +#include "pathmax.h" + #define MAXINPUTSIZE32BITVERSION (UintConst(1) << 30) static void transformstringlocalinplace(Uchar *sequence, --- a/src/Mkvtree/mkvprocess.c +++ b/src/Mkvtree/mkvprocess.c @@ -32,6 +32,8 @@ #include "cprsuf.pr" +#include "pathmax.h" + #define EXTRASUFFIXLENGTH 5 // dot and suffix of length at most 4 #define NUMOFBASES UintConst(4) // number of bases in DNA alphabet --- a/src/Mkvtree/mkvtree.c +++ b/src/Mkvtree/mkvtree.c @@ -25,6 +25,8 @@ #include "mkvprocess.pr" #include "getbasename.pr" +#include "pathmax.h" + #ifndef NOLICENSEMANAGER #include "licensemanager.h" #endif --- a/src/Mkvtree/vseqselect.c +++ b/src/Mkvtree/vseqselect.c @@ -25,6 +25,8 @@ #include "safescpy.pr" #include "filehandle.pr" +#include "pathmax.h" + #ifndef NOLICENSEMANAGER #include "licensemanager.h" #endif --- a/src/Mkvtree/vstree2tex.c +++ b/src/Mkvtree/vstree2tex.c @@ -17,6 +17,8 @@ #include "filehandle.pr" #include "safescpy.pr" +#include "pathmax.h" + #ifndef NOLICENSEMANAGER #include "licensemanager.h" #endif --- a/src/Mkvtree/vsubseqselect.c +++ b/src/Mkvtree/vsubseqselect.c @@ -12,6 +12,8 @@ #include "programversion.h" #include "drand48.h" +#include "pathmax.h" + #include "accvirt.pr" #include "procopt.pr" #include "multiseq-adv.pr" --- a/src/Vmatch/chain2dim.mn.c +++ b/src/Vmatch/chain2dim.mn.c @@ -14,6 +14,8 @@ #include "chaincall.h" #include "programversion.h" +#include "pathmax.h" + #include "dstrdup.pr" #include "procopt.pr" #include "filehandle.pr" --- a/src/Vmatch/chaincall.h +++ b/src/Vmatch/chaincall.h @@ -6,6 +6,8 @@ #include "chaindef.h" +#include "pathmax.h" + //} #define CHAINPREFIX "chain" --- a/src/Vmatch/chainof.c +++ b/src/Vmatch/chainof.c @@ -11,6 +11,8 @@ #include "genfile.h" #include "chaincall.h" +#include "pathmax.h" + #include "filehandle.pr" #include "redblack.pr" #include "chain2dim.pr" --- a/src/Vmatch/chainvm.c +++ b/src/Vmatch/chainvm.c @@ -8,6 +8,8 @@ #include "chaincall.h" #include "threaddef.h" +#include "pathmax.h" + #include "matsort.pr" #include "chain2dim.pr" #include "filehandle.pr" --- a/src/Vmatch/chncallparse.c +++ b/src/Vmatch/chncallparse.c @@ -13,6 +13,8 @@ #include "qualint.h" #include "chaincall.h" +#include "pathmax.h" + #include "dstrdup.pr" #include "prsqualint.pr" #include "procopt.pr" --- a/src/Vmatch/clpos.c +++ b/src/Vmatch/clpos.c @@ -2,6 +2,8 @@ #include "debugdef.h" #include "mcldef.h" +#include "pathmax.h" + #include "matchclust.pr" #include "safescpy.pr" --- a/src/Vmatch/cluedist.c +++ b/src/Vmatch/cluedist.c @@ -10,6 +10,8 @@ #include "galigndef.h" #include "mcldef.h" +#include "pathmax.h" + #include "frontSEP.pr" #include "matchclust.pr" #include "safescpy.pr" --- a/src/Vmatch/matchtask.h +++ b/src/Vmatch/matchtask.h @@ -17,6 +17,8 @@ #include "fqfinfo.h" #include "outinfo.h" +#include "pathmax.h" + #ifdef VMATCHDB #include "vmdbparms.h" #endif --- a/src/Vmatch/mcldef.h +++ b/src/Vmatch/mcldef.h @@ -8,6 +8,8 @@ #include "alphadef.h" #include "match.h" +#include "pathmax.h" + #define MATCHCLUSTERNAME "matchcluster" typedef struct --- a/src/Vmatch/parsemcl.c +++ b/src/Vmatch/parsemcl.c @@ -6,6 +6,8 @@ #include "mcldef.h" #include "galigndef.h" +#include "pathmax.h" + #include "dstrdup.pr" #include "procopt.pr" #include "frontSEP.pr" --- a/src/Vmatch/parsevm.c +++ b/src/Vmatch/parsevm.c @@ -20,6 +20,8 @@ #include "visible.h" #include "multidef.h" +#include "pathmax.h" + #include "dstrdup.pr" #include "checkonoff.pr" #include "matsort.pr" --- a/src/Vmatch/procargs.c +++ b/src/Vmatch/procargs.c @@ -9,6 +9,8 @@ #include "optdesc.h" #include "file.h" +#include "pathmax.h" + #include "checkonoff.pr" #include "splitargs.pr" --- a/src/Vmatch/procmatch.c +++ b/src/Vmatch/procmatch.c @@ -8,6 +8,8 @@ #include "scoredef.h" #include "procmultiseq.h" +#include "pathmax.h" + #include "dstrdup.pr" #include "detpfxlen.pr" #include "readvirt.pr" --- a/src/Vmatch/vmcluster.c +++ b/src/Vmatch/vmcluster.c @@ -9,6 +9,8 @@ #include "genfile.h" #include "fhandledef.h" +#include "pathmax.h" + #include "multiseq-adv.pr" #include "procargs.pr"