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Nikolai Bezroukov, 2018-2020. Licensed under Artistic license
Utility msync is a wrapper for rsync and is designed to speed up transfer of multiple large files (mainly compressed archives) such as genomes files to the target server over high latency WAN links (for example to/from AWS)
It organizes files into given number of "piles" and transfers all piles in parallel using for each separate invocation of rsync or tar pipe to the target server.
It is designed mainly to transfer compressed tarballs and other compressed file as it does not compress the stream in rsync for most files (only if a text file is detected, for example FASTA file it will be automatically compressed in transit via option z of rsync).
Also the resumption of partial transfer does not work well on uncompressed text files as it can be not a partial file, but an identical file with encoding converted during or after the transmission.
The utility also can be used for for finishing botched transfers of huge archives, started using scp or tar.
Can serve as poor man replacement for UDP based transfer software (such as extremely expensive IBM Aspera), although UDP protocol is definitely better suited for transfer of large files over WAN.
With latency around 100 msec and 8 threads transfer rate varies between 50 and 100 MB/sec. It was successfully used to transfer hundreds of terabytes over transatlantic link. Sometimes I managed to transfer around 4TB in 24 hours on 100 msec latency WAN link.
ATTENTION: both parameters are obligatory and can't be omitted unless they are specified in config file
Like may copy utilities, this utility has two parameters (source dir and target dir). Both are obligatory and can't be omitted unless they are specified in config file
There are two ways to invoke this utility:
1. By specifying absolute path to BASE directory on the source and target. All files in this directory will be transferred although it might need multiple invocations.
msync BASE_DIR_SOURCE BASE_DIR_ON_TARGET
msync -u backup -t 10.1.1.1 /doolittle/Projects/Critical/Genome033/ /gpfs/backup/data/bioinformatics/Critical/Genome033
2. Specifying selected list of files and directories either with abs path or relative to BASE directory. Only they will be transferred.
This is subset should be stored one entry per line in the file provided in option -f.
msync -t 10.1.1.1 -f critical.lst /doolittle/Projects/Critical/Genome033/ /gpfs/backup/data/bioinformatics/Critical/Genome033
if invoked with three parameters the third parameter is interpreted as the common tail and added to both BASE_DIR_SOURCE and BASE_DIR_ON_TARGET
msync BASE_DIR TARGET_DIRECTORY SUBDIRECTORY
That means that the previous example can be rewritten as
msync -u backup -t 10.1.1.1 -f critical.lst /doolittle/Projects /gpfs/nobackup/data/bioinformatics Critical/Genome033
You need to experiment to find the optimal number for your situation. For some reason on large files rsync works better
even if they do not exist of the target.
split --bytes 5T --numeric-suffixes --suffix-length=3 foo /tmp/foo.
The split commands generate chunks named: foo.000, foo.001 ...
For re-assembling you need to sort chunks firstcd $TARGET && cat `ls foo.* | sort` > foo
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Last modified: October 30, 2020