Hi Martin and Dan,
Thanks for your help. Although we do not have any errors in building Rsubead on
our linux machine, I have incorporated all the changes you suggested into
Rsubread. I tested it on our machine and it worked fine. I have just committed
the changes to the devel svn repository and the latest Rsubread version is
1.9.7. Hope it now works on george2.
The version of R I'm using is R3.0.0rc r62427.
Best regards,
Wei
On Mar 29, 2013, at 3:08 PM, Martin Morgan wrote:
> On 03/28/2013 08:36 PM, Wei Shi wrote:
>> Dear Bioc core team,
>>
>> Our Rsubead package got a build error on george2, but we could not reproduce
>> the error on our local linux machine. It is successfully built and installed
>> on our linux computer. Is it possible that you can give us more information
>> about what might cause this error?
>>
>
> Hi Wei -
>
> The configure file fails
>
> ./configure: 9: ./configure: [[: not found
>
> so the wrong Makefile is being used. You need to link to libz
>
> $ svn diff Makevars.Linux
> Index: Makevars.Linux
> ===================================================================
> --- Makevars.Linux (revision 74972)
> +++ Makevars.Linux (working copy)
> @@ -1,2 +1,2 @@
> PKG_CFLAGS+=-DMAKE_FOR_EXON
> -PKG_LIBS+=-lpthread -DMAKE_FOR_EXON
> +PKG_LIBS+=-lz -lpthread -DMAKE_FOR_EXON
>
>
> 'inline' functions need to be declared 'static'
>
>
> $ svn diff sorted-hashtable.c
> Index: sorted-hashtable.c
> ===================================================================
> --- sorted-hashtable.c (revision 74972)
> +++ sorted-hashtable.c (working copy)
> @@ -851,7 +851,7 @@
> // }
> //
>
> -inline unsigned int load_int32(FILE * fp)
> +static inline unsigned int load_int32(FILE * fp)
> {
> int ret;
> int read_length;
> @@ -860,7 +860,7 @@
> return ret;
> }
>
> -inline long long int load_int64(FILE * fp)
> +static inline long long int load_int64(FILE * fp)
> {
> long long int ret;
> int read_length;
>
>
>> Many thanks,
>> Wei
>>
>> ______________________________________________________________________
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>>
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>>
>
>
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>
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