[Seqinr-forum] about read.alignment and read.fasta

[Abhijeet Shah]

Hi Simon and Jean, 
I don't have root/admin access to the server so I can't update R to 2.14.2 (from 2.12.2). 
But the other suggestion of adding the line " library.dynam("seqnir") " right after loading the package 
worked like a charm!

Thank You once again for your help,


Best Wishes
Abhijeet Shah



On 14 Mar 2012, at 16:34, THIOULOUSE JEAN wrote:

> 
> A simple update of R to v. 2.14.2 solved the problem for me.
> But the NAMESPACE should be added very soon indeed.
> 
> Jean
> 
> Le 14 mars 2012 à 16:21, Simon Penel a écrit :
> 
>> Hi,
>> As Jean said, I think the problem is related to the version of R ( and 
>> the fact that the NAMESPACE file is still missing in seqinr , it is 
>> something we should change).
>> Anyway, a temporary solution to use seqinr is to type :
>> 
>> library.dynam("seqinr")
>> 
>> 
>> juste after  you typed library(seqinr)
>> 
>> 
>> Simon
>> 
>> 
>> 
>> Le 14/03/12 16:15, THIOULOUSE JEAN a écrit :
>>> Did you update to the latest version of R (2.14.2) before upgrading to seqinr 3.06 ?
>>> 
>>> Jean
>>> 
>>> 
>>> Le 14 mars 2012 à 13:24, Abhijeet Shah a écrit :
>>> 
>>>> Hi seqinR users,
>>>> 
>>>> I had a slight problem with the commands read.alignment() and read.fasta()
>>>> with the latest version of seqinR (version 3.06).
>>>> 
>>>> whenever I use the command read.alignment
>>>> 
>>>>> read.alignment(file="generated_sequences.ma", format="fasta")
>>>> Error in .Call("read_fasta_align", file, PACKAGE = "seqinr") :
>>>> C symbol name "read_fasta_align" not in DLL for package "seqinr"
>>>> 
>>>> 
>>>> Similarly, I get the following error with read.fasta
>>>> 
>>>>> read.fasta(file="generated_sequences.ma")
>>>> Error in .Call("s2c", string, PACKAGE = "seqinr") :
>>>> C symbol name "s2c" not in DLL for package "seqinr"
>>>> 
>>>> 
>>>> Does anyone else have the same problems with version 3.06?
>>>> I reverted to version 3.05, and the errors disappeared!
>>>> 
>>>> Please Advise.
>>>> 
>>>> Thank You
>>>> 
>>>> 
>>>> 
>>>> 
>>>> Best Wishes
>>>> Abhijeet Shah
>>>> 
>>>> 
>>>> 
>>>> 
>>>> 
>>>> 
>>>> 
>>>> Abhijeet Shah
>>>> Munich Graduate School for Evolution, Ecology and Systematics
>>>> Ludwig-Maximilians-Universität München
>>>> email : Abhijeet.Shah at campus.lmu.de,
>>>> email: abhijeet.shah at gmail.com
>>>> 
>>>> 
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>> 
>> 
>> -- 
>> Simon Penel
>> Laboratoire de Biometrie et Biologie Evolutive
>> Bat 711 - CNRS UMR 5558 - Universite Lyon 1
>> 43 bd du 11 novembre 1918 69622 Villeurbanne Cedex
>> Tel:   04 72 43 29 04      Fax:  04 72 43 13 88
>> http://lbbe.univ-lyon1.fr/-Penel-Simon-.html?lang=fr
>> 
>> ATTENTION NOUVELLE ADRESSE:
>> simon.penel at univ-lyon1.fr
>> 
>> 
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> 
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Abhijeet Shah
Munich Graduate School for Evolution, Ecology and Systematics 
Ludwig-Maximilians-Universität München 
email : Abhijeet.Shah at campus.lmu.de,
email: abhijeet.shah at gmail.com