Okay, this turned out to be useful. It appears that the contents of your file 'Makefile.config.incl' is including itself (it appears to be a copy of 'Makefile.incl'). This recurses about 1000 times, at which point you hit the file handle limit. The resulting error is apparently ignored due to the '-include'.
So, either make 'Makefile.config.incl' an empty file, or otherwise I think it should be just a short file including a few variable definitions. Also, verify that neither of these files is a symbolic or hard link to the other. Probably this will fix things, or at least move things forward. Mike On Aug 31, 2:34 am, Eliza <blond...@googlemail.com> wrote: > OK I have added make.strace.gz to the file uploads. > > On Aug 28, 6:34 pm, Mike Coleman <tutu...@gmail.com> wrote: > > > Okay, if you really want to bring out the big guns, do something like > > this > > > $ strace -f -s 1024 -v -o make.strace make > > > and put the resulting 'make.strace' log somewhere where we can look at > > it. I think this is erroring out pretty quickly, so hopefully that > > log won't be too huge. No promises, but this may very well clarify > > what's going wrong. > > > You'll have to install the strace package if it's not already present. > > > Mike > > > On Aug 28, 4:59 am, Eliza <blond...@googlemail.com> wrote: > > > > That doesn't make any difference. > > > > On Aug 27, 8:12 pm, "Brian Pratt" <brian.pr...@insilicos.com> wrote: > > > > > Yeah, that's what we use here too. Perhaps you could try it as a > > > > different, > > > > newly created user? It sounds like there is something peculiar about > > > > your > > > > shell setup. > > > > > -----Original Message----- > > > > From: spctools-discuss@googlegroups.com > > > > > [mailto:spctools-disc...@googlegroups.com] On Behalf Of Eliza > > > > Sent: Thursday, August 27, 2009 12:13 AM > > > > To: spctools-discuss > > > > Subject: [spctools-discuss] Re: Failure with make > > > > > Bash > > > > > On Aug 20, 11:55 pm, "Brian Pratt" <brian.pr...@insilicos.com> wrote: > > > > > We basically tried that already: Eliza says the suggested > > > > > > export PWD=/opt/trans_proteomic_pipeline/src ; make all install > > > > > > did not work. She also tried the "SRC_ROOT= $(shell pwd)" change to > > > > > the > > > > > makefile. There's something deeper going on. > > > > > > Eliza, what shell do you use? I do see from googling that $PWD might > > > > > be > > > > > bash-specific, possibly there are other unintended bash dependencies. > > > > > > > > > > > Brian > > > > > > -----Original Message----- > > > > > From: spctools-discuss@googlegroups.com > > > > > > [mailto:spctools-disc...@googlegroups.com] On Behalf Of Mike Coleman > > > > > Sent: Thursday, August 20, 2009 1:26 PM > > > > > To: spctools-discuss > > > > > Subject: [spctools-discuss] Re: Failure with make > > > > > > Eliza, > > > > > > I'm still suspicious about the $PWD thing. If you're running 'make' > > > > > normally, you might try something like > > > > > > $ PWD=$(pwd) make ... > > > > > > instead of just > > > > > > $ make ... > > > > > > to see whether that improves your situation. Alternatively, for the > > > > > 'root' steps, you could do something like > > > > > > $ sudo PWD=$(pwd) make ... > > > > > > Mike --~--~---------~--~----~------------~-------~--~----~ You received this message because you are subscribed to the Google Groups "spctools-discuss" group. To post to this group, send email to spctools-discuss@googlegroups.com To unsubscribe from this group, send email to spctools-discuss+unsubscr...@googlegroups.com For more options, visit this group at http://groups.google.com/group/spctools-discuss?hl=en -~----------~----~----~----~------~----~------~--~---
