Hi Herve,
The recent update of Rsamtools is using a new method of path. However, you did not export this method. Will you export it? Or we should drop the dependence of this method?
Yours Sincerely,
Jianhong Ou
TEL: 508-856-5379
LRB 608
Bioinformatician of Bioinformatics core at
Department of Molecular, Cell and Cancer Biology
UMASS Medical School
364 Plantation Street Worcester,
MA 01605
Confidentiality Notice:\ This e-mail message, including ...{{dropped:11}}
[Bioc-devel] Rsamtools does not export "path"
3 messages · Hervé Pagès, Ou, Jianhong
1 day later
Hi Jianhong, I didn't touch the "path" method defined in Rsamtools, only moved the path() generic from Rsamtools to BiocGenerics. This broke a few NAMESPACE in other packages that Marcel and I are in the process of fixing. The build report should already look much better tomorrow (Wed 20) and most of the packages that don't install right now because of these NAMESPACE problems should install again tomorrow (after running biocLite()). Sorry for the inconvenience. H.
On 12/18/2017 09:48 AM, Ou, Jianhong wrote:
Hi Herve, The recent update of Rsamtools is using a new method of path. However, you did not export this method. Will you export it? Or we should drop the dependence of this method? Yours Sincerely, Jianhong Ou TEL: 508-856-5379 LRB 608 Bioinformatician?of Bioinformatics core at Department of Molecular, Cell and Cancer Biology UMASS Medical School 364 Plantation Street Worcester, MA 01605 /_Confidentiality Notice:_/ /This e-mail message, including any attachments, is for the sole use of the intended?recipient(s) and may contain confidential, proprietary and privileged information. Any unauthorized review, use, disclosure or distribution is prohibited. If you are not the intended recipient, please contact the sender immediately and destroy or permanently delete all copies of the original message./
Herv? Pag?s Program in Computational Biology Division of Public Health Sciences Fred Hutchinson Cancer Research Center 1100 Fairview Ave. N, M1-B514 P.O. Box 19024 Seattle, WA 98109-1024 E-mail: hpages at fredhutch.org Phone: (206) 667-5791 Fax: (206) 667-1319
Thank you Herve for the information. Yours Sincerely, Jianhong Ou TEL: 508-856-5379 LRB 608 Bioinformatician of Bioinformatics core at Department of Molecular, Cell and Cancer Biology UMASS Medical School 364 Plantation Street Worcester, MA 01605 Confidentiality Notice: This e-mail message, including any attachments, is for the sole use of the intended recipient(s) and may contain confidential, proprietary and privileged information. Any unauthorized review, use, disclosure or distribution is prohibited. If you are not the intended recipient, please contact the sender immediately and destroy or permanently delete all copies of the original message.
From: Herv? Pag?s [hpages at fredhutch.org]
Sent: Tuesday, December 19, 2017 9:52 PM
To: Ou, Jianhong; bioc-devel at r-project.org
Subject: Re: Rsamtools does not export "path"
Sent: Tuesday, December 19, 2017 9:52 PM
To: Ou, Jianhong; bioc-devel at r-project.org
Subject: Re: Rsamtools does not export "path"
Hi Jianhong, I didn't touch the "path" method defined in Rsamtools, only moved the path() generic from Rsamtools to BiocGenerics. This broke a few NAMESPACE in other packages that Marcel and I are in the process of fixing. The build report should already look much better tomorrow (Wed 20) and most of the packages that don't install right now because of these NAMESPACE problems should install again tomorrow (after running biocLite()). Sorry for the inconvenience. H. On 12/18/2017 09:48 AM, Ou, Jianhong wrote: > Hi Herve, > > The recent update of Rsamtools is using a new method of path. However, > you did not export this method. Will you export it? Or we should drop > the dependence of this method? > > Yours Sincerely, > > Jianhong Ou > > TEL: 508-856-5379 > LRB 608 > Bioinformatician of Bioinformatics core at > Department of Molecular, Cell and Cancer Biology > UMASS Medical School > 364 Plantation Street Worcester, > MA 01605 > > /_Confidentiality Notice:_/ > > /This e-mail message, including any attachments, is for the sole use of > the intended recipient(s) and may contain confidential, proprietary and > privileged information. Any unauthorized review, use, disclosure or > distribution is prohibited. If you are not the intended recipient, > please contact the sender immediately and destroy or permanently delete > all copies of the original message./ > -- Herv? Pag?s Program in Computational Biology Division of Public Health Sciences Fred Hutchinson Cancer Research Center 1100 Fairview Ave. N, M1-B514 P.O. Box 19024 Seattle, WA 98109-1024 E-mail: hpages at fredhutch.org Phone: (206) 667-5791 Fax: (206) 667-1319