Groomer

Question: Groomer

7.8 years ago by

Johnson, Kory (NIH/NINDS) [C] • 50 wrote:

Hello, Do you have a chart or table that projects time for Groomer to complete vs number of reads provided? Have submitted job totaling 25M Illumina reads in FASTQ v1.3+ format and it is taking time on the order of days. What would be helpful, if not on the development schedule is a progress bar or % completed reported as text, anything to give indication that the job submitted is processing correctly, not hung, and it can be estimated how long it will take. Thank you, Kory Johnson Kory R. Johnson, MS, PhD Sr. Bioinformatics Scientist [cid:image001.jpg@01CBD41D.D48D9620] www.kellygovernmentsolutions.com Providing Contract Services For: Bioinformatics Section, Information Technology & Bioinformatics Program, Division of Intramural Research (DIR), National Institute of Neurological Disorders & Stroke (NINDS), National Institutes of Health (NIH), Bethesda, Maryland Mailing Address: NINDS/NIH Clinical Center (Building 10) Office 5S223 9000 Rockville Pike Bethesda, MD 20892 Contact Information: Phone: 301-402-1956 Fax: 301-480-3563 email: johnsonko@ninds.nih.gov P Green Message: Please consider the environment before printing this e-mail. Thank you. Important Message: This electronic message transmission contains information intended for the recipient only. Such that, the information contained herein may be confidential, privaledged, or proprietary. If you are not the intended recipient, be aware that any disclosure, copying, distribution, or use of this information is strictly prohibited. If you have received this electronic information in error, please notify the sender immediately by telephone. Thank you.

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modified 7.8 years ago by John David Osborne • 160 • written 7.8 years ago by Johnson, Kory (NIH/NINDS) [C] • 50

7.8 years ago by

John David Osborne • 160

John David Osborne • 160 wrote:

I second that, I just ran my first run of Groomer today and I would have cancelled the top for taking too long if I didn't know the CPU was busy. -John Hello, Do you have a chart or table that projects time for Groomer to complete vs number of reads provided? Have submitted job totaling 25M Illumina reads in FASTQ v1.3+ format and it is taking time on the order of days. What would be helpful, if not on the development schedule is a progress bar or % completed reported as text, anything to give indication that the job submitted is processing correctly, not hung, and it can be estimated how long it will take. Thank you, Kory Johnson Kory R. Johnson, MS, PhD Sr. Bioinformatics Scientist [cid:3381394372_81836924] www.kellygovernmentsolutions.com Providing Contract Services For: Bioinformatics Section, Information Technology & Bioinformatics Program, Division of Intramural Research (DIR), National Institute of Neurological Disorders & Stroke (NINDS), National Institutes of Health (NIH), Bethesda, Maryland Mailing Address: NINDS/NIH Clinical Center (Building 10) Office 5S223 9000 Rockville Pike Bethesda, MD 20892 Contact Information: Phone: 301-402-1956 Fax: 301-480-3563 email: johnsonko@ninds.nih.gov P Green Message: Please consider the environment before printing this e-mail. Thank you. Important Message: This electronic message transmission contains information intended for the recipient only. Such that, the information contained herein may be confidential, privaledged, or proprietary. If you are not the intended recipient, be aware that any disclosure, copying, distribution, or use of this information is strictly prohibited. If you have received this electronic information in error, please notify the sender immediately by telephone. Thank you.

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