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matsen / pplacer

Phylogenetic placement and downstream analysis
http://matsen.fredhutch.org/pplacer/
GNU General Public License v3.0
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guppy compile fail #301

Closed hexaquo closed 11 years ago

hexaquo commented 11 years ago

I am hoping to use your cool software, but I keep failing during compilation. I am attempting to compile on an older mac (2 GHz intel core Duo) running Mac OS X 10.6.8. Downgraded from OCaml 4.00.0 to OCaml 3.12.1 to compile dependencies. During compilation, the binary for pplacer is built but then Makefile fails at:

ocamlbuild guppy.native

and I get the following error:

Undefined symbols: "_gsl_stats_correlation", referenced from: _ml_gsl_stats_correlation in libmlgsl.a(mlgsl_stats.o) (maybe you meant: _ml_gsl_stats_correlation) ld: symbol(s) not found collect2: ld returned 1 exit status File "caml_startup", line 1, characters 0-1: Error: Error during linking Command exited with code 2. Compilation unsuccessful after building 417 targets (416 cached) in 00:00:15.

I have searched for anyone having a similar problem to no avail. Seems like it might be a problem with the gsl library, but if that was so, I would have expected others to have this same problem.

Thanks!

matsen commented 11 years ago

Thanks for your interest.

Just to make sure, you are working on a core Duo and not a core 2 duo?

On Sat, Mar 2, 2013 at 2:04 PM, hexaquo notifications@github.com wrote:

I am hoping to use your cool software, but I keep failing during compilation. I am attempting to compile on an older mac (2 GHz intel core Duo) running Mac OS X 10.6.8. Downgraded from OCaml 4.00.0 to OCaml 3.12.1 to compile dependencies. During compilation, the binary for pplacer is built but then Makefile fails at:

ocamlbuild guppy.native

and I get the following error:

Undefined symbols: "_gsl_stats_correlation", referenced from: _ml_gsl_stats_correlation in libmlgsl.a(mlgsl_stats.o) (maybe you meant: _ml_gsl_stats_correlation) ld: symbol(s) not found collect2: ld returned 1 exit status File "caml_startup", line 1, characters 0-1: Error: Error during linking Command exited with code 2. Compilation unsuccessful after building 417 targets (416 cached) in 00:00:15.

I have searched for anyone having a similar problem to no avail. Seems like it might be a problem with the gsl library, but if that was so, I would have expected others to have this same problem.

Thanks!

— Reply to this email directly or view it on GitHubhttps://github.com/matsen/pplacer/issues/301 .

Frederick "Erick" Matsen, Assistant Member Fred Hutchinson Cancer Research Center http://matsen.fhcrc.org/

hexaquo commented 11 years ago

Yes, core duo it is...here is my hardware overview. Thanks!

Hardware Overview:

Model Name: MacBook Pro Model Identifier: MacBookPro1,1 Processor Name: Intel Core Duo Processor Speed: 2 GHz Number Of Processors: 1 Total Number Of Cores: 2 L2 Cache: 2 MB Memory: 1.5 GB Bus Speed: 667 MHz Boot ROM Version: MBP11.0055.B08 SMC Version (system): 1.2f10

matsen commented 11 years ago

I'm sorry to say that we don't have any Core Duos around here, and that OCaml is really targeted at 64-bit processors. Apologies.

On Sun, Mar 3, 2013 at 5:00 PM, hexaquo notifications@github.com wrote:

Yes, core duo it is...here is my hardware overview. Thanks!

Hardware Overview:

Model Name: MacBook Pro Model Identifier: MacBookPro1,1 Processor Name: Intel Core Duo Processor Speed: 2 GHz Number Of Processors: 1 Total Number Of Cores: 2 L2 Cache: 2 MB Memory: 1.5 GB Bus Speed: 667 MHz Boot ROM Version: MBP11.0055.B08 SMC Version (system): 1.2f10

— Reply to this email directly or view it on GitHubhttps://github.com/matsen/pplacer/issues/301#issuecomment-14359816 .

Frederick "Erick" Matsen, Assistant Member Fred Hutchinson Cancer Research Center http://matsen.fhcrc.org/