Thanks for the information. Yes, I know the line number tool, but running this
for each file a user is interested in getting a line number is a pain (and
confusing because the history items double), because in our case (probably not
rare for real analysis tasks), this information is almost always needed to
watch if anything funny happens. Maybe it is possible to add a link near the
approximate line number, so that the user can get the accurate numbers more
easily if desired?
On Jul 31, 2011, at 11:38 AM, Dannon Baker wrote:
> You guessed correctly as to why we implemented this, getting exact line
> counts on very large files is a time consuming process. You can still get an
> exact line count using the Line/Word/Character count tool in the Text
> Manipulation section.
> If you're interested in the way it currently works, the first 1MB of a large
> file is read, and a line number approximation is made from that and the
> assumption that line lengths don't vary dramatically throughout the file. It
> would slow down the metadata setting, but for a personal galaxy instance you
> could certainly increase that number, or disable the estimation entirely.
> On Jul 31, 2011, at 11:11 AM, Chaolin Zhang wrote:
>> I noticed that the current version of galaxy shows approximate number of
>> lines for history items, when it is relatively big. I guess this is due to
>> a consideration of performance, but it is quite annoying, because the exact
>> line numbers provide a very easy way for users to get simple statistics.
>> Sometimes the approximation can be really off. For instance, for one file
>> with > 1 M lines, it shows ~850,000 lines. Any thought?
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Please keep all replies on the list by using "reply all"
in your mail client. To manage your subscriptions to this
and other Galaxy lists, please use the interface at: