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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/gecko commit 52b2b430b2d0ac983f426da298d966074a24f5cd"
author iuc
date Mon, 04 Jan 2021 21:01:55 +0000
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09459f6ffe08 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/gecko commit f0c70444d9781900f0af1638792818543c65acfc"
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1 # IMPORTANT INFORMATION FOR SYSTEM ADMINISTRATORS
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09459f6ffe08 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/gecko commit f0c70444d9781900f0af1638792818543c65acfc"
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3 The tool GECKO is disk-intensive. This means that the algorithm will write a lot to the hard disk drive, which, even though buffered, can affect the performance of other processes that are sharing the same filesystem by starving their access to the disk.
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5 ## Recommended use in concurrent systems
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7 If GECKO is being used concurrently, it is recommended that the input file size is limited in order to avoid overall deterioration of the performance of the system. See details below for an estimate.
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9 ## Details
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11 The most disk-consuming step is the writing of "seeds" or "hits". These depend on the length and the similarity of the input sequences.
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13 - A regular bacterial comparison (1 to 10 MB input sequences) can write around 1 to 5 GB.
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14 - A medium-sized comparison (around 20 or 30 MB input sequences) can write around 10 GB.
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15 - A chromosome comparison (50 to 200 MB input sequences) between human and gorilla can write around 600 GB. Other "less" similar comparison can write around 100 GB or less.
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