Re: BpWrapper: acknowledgements & call for beta-testers

Hi Chris,

Thanks for the encouragement & suggestions. We will definitely cite the
reference.

Rocky developed formal testing scripts on multiple OS & versions of the
same OS. We will take a look at the scripts and see what could popular one
be wrapped.

weigang

On Tue, Mar 7, 2017 at 3:24 PM, Fields, Christopher J <[email protected]
> wrote:

> Hi Weigang et al,
>
>
>
> Congrats on the manuscript!  Apologies for the late reply, this one snuck
> by me.
>
>
>
> The FAQ (http://bioperl.org/FAQ.html) can answer some of these
> questions.  In general I would refer to the citation (
> http://genome.cshlp.org/content/12/10/1611); if there is anyone in
> particular you wish to acknowledge they could be mentioned in that section.
>
>
>
> I agree, having simpler front-end scripts/wrappers is a definite benefit
> long-term, primarily b/c you are creating a more user-friendly front-end.
> I’m actually wondering where some of the more popular scripts in the core
> ‘scripts’ directory could be ported to this, it seems like a better
> long-term solution since these appear to be tested (one thing the scripts
> actually lack).
>
>
>
> chris
>
>
>
> *From: *Bioperl-l <bioperl-l-bounces+cjfields=il
> [email protected]> on behalf of Weigang Qiu <
> [email protected]>
> *Date: *Monday, February 27, 2017 at 11:34 AM
> *To: *"[email protected]" <[email protected]>
> *Cc: *Yozen Hernandez <[email protected]>, Rocky Bernstein <[email protected]>
> *Subject: *[Bioperl-l] BpWrapper: acknowledgements & call for beta-testers
>
>
>
> Dear BopPerl developers & users,
>
>
>
> We are planning to formally release and write a manuscript on BbWrapper (
> https://github.com/bioperl/p5-bpwrapper
> <https://urldefense.proofpoint.com/v2/url?u=https-3A__github.com_bioperl_p5-2Dbpwrapper&d=DwMFAw&c=8hUWFZcy2Z-Za5rBPlktOQ&r=fbHa8Njtvh9VmSnzJxiEUTW9NWDwMMwQAzhgZDO41GQ&m=gIy3Q-j_l_SE6i2xe-Xz_MJoKSaejmd8ly8ocL33S2s&s=ysZ_nQMICzFIyF5MTqSiwGaVQ9AADfU_7f8WxoEswvo&e=>),
> currently including four command-line utilities (bioseq, bioaln, biotree,
> biopop) for manipulation of sequences, alignments, and phylogenetic trees.
>
>
>
> We would like to ask for your input on the following two issues:
>
>    - How should we properly acknowledge the original developers (since
>    most of the options are wrappers of BioPerl methods, not original codes by
>    ourselves)? Is there an “official” statement of acknowledgement?
>    - I would like to invite you for beta-testing, commenting on, and
>    contributing to BbWrapper. This is necessary, because, while we are honored
>    to be hosted by bioperl.org, I have no idea how many (if any, besides
>    ourselves) have tried  or used these wrapper scripts.
>
> We believe the “Wrapper”-approach is more robust than many stand-alone
> sequence utilities out there because of this community of developers and
> users. Also, we believe these wrapper scripts could further popularize
> BioPerl among biologists by relieving them from writing object-oriented
> module callers.
>
>
>
> Thanks,
>
>
>
> weigang
>
> ----------------
>
> Weigang Qiu, Ph.D. Associate Professor
>
> Department of Biological Sciences
>
> Hunter College of the City University of New York
>
> Belfer Research Building
>
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>
> New York, NY 10021
>
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>
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>
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>
>
>



-- 
Weigang Qiu (邱伟刚)
117-14 Union Turnpike
AC3
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