ur...@gmail.com LI <http://linkedin.com/in/russelljurney> FB
> <http://facebook.com/jurney> datasyndrome.com Book a time on Calendly
> <https://calendly.com/rjurney_personal/30min>
>
>
> On Fri, Feb 24, 2023 at 9:53 AM Oliver Ruebenacker <
> oliv...@broadinstitut
t call last):
>>>> File "nearest-gene.py", line 74, in
>>>> main()
>>>> File "nearest-gene.py", line 62, in main
>>>> distances = joined.withColumn("distance", max(col("start") -
>>>> co
' for 'and', '|'
for 'or', '~' for 'not' when building DataFrame boolean expressions.
```
On Thu, Feb 23, 2023 at 2:00 PM Sean Owen wrote:
> That error sounds like it's from pandas not spark. Are you sure it's this
> line?
>
> On Thu, Feb 23, 2023, 12:57 PM Oliver Ruebenacker <
&g
hen building DataFrame boolean expressions.
```
How can I do this? Thanks!
Best, Oliver
--
Oliver Ruebenacker, Ph.D. (he)
Senior Software Engineer, Knowledge Portal Network
<http://kp4cd.org/>, Flannick
Lab <http://www.flannicklab.org/>, Broad Institute
<http://www.broadinstitute.org/>
must be same type but were: string !=
>> array;
>>
>> How do I do this? Thanks!
>>
>> Best, Oliver
>>
>> --
>> Oliver Ruebenacker, Ph.D. (he)
>> Senior Software Engineer, Knowledge Portal Network <http://kp4cd.org/>,
>> Flan
:
pyspark.sql.utils.AnalysisException: cannot resolve '(gene IN (nearest))'
due to data type mismatch: Arguments must be same type but were: string !=
array;
How do I do this? Thanks!
Best, Oliver
--
Oliver Ruebenacker, Ph.D. (he)
Senior Software Engineer, Knowledge Portal Network
<h
,>=1.19.5 in
> /usr/local/lib64/python3.11/site-packages (from scipy) (1.24.1)
> Installing collected packages: scipy
> Successfully installed scipy-1.10.0
> WARNING: Running pip as the 'root' user can result in broken permissions
> and conflicting behaviour with the syste
gt;
>
>
>
> fre. 6. jan. 2023, 16:01 skrev Oliver Ruebenacker <
> oliv...@broadinstitute.org>:
>
>>
>> Hello,
>>
>> I'm trying to install SciPy using a bootstrap script and then use it to
>> calculate a new field in a dataframe, running
, but then at this
line:
*from scipy.stats import norm*
I get the following error:
*ValueError: numpy.ndarray size changed, may indicate binary
incompatibility. Expected 88 from C header, got 80 from PyObject*
Any advice on how to proceed? Thanks!
Best, Oliver
--
Oliver Ruebenacker, Ph.D. (he)
Senior
be improved.
>
>
>
>view my Linkedin profile
> <https://www.linkedin.com/in/mich-talebzadeh-ph-d-5205b2/>
>
>
> https://en.everybodywiki.com/Mich_Talebzadeh
>
>
>
> *Disclaimer:* Use it at your own risk. Any and all responsibility for any
> los
it needs to order/sort.
> --
> Raghavendra
>
>
> On Mon, Dec 19, 2022 at 8:57 PM Oliver Ruebenacker <
> oliv...@broadinstitute.org> wrote:
>
>>
>> Hello,
>>
>> How can I retain from each group only the row for which one value is
>>
ur own risk. Any and all responsibility for any
> loss, damage or destruction of data or any other property which may arise
> from relying on this email's technical content is explicitly disclaimed.
> The author will in no case be liable for any monetary damages arising from
Miami 6202
>>
>> Which you could further filter in another CTE or subquery where
>> PopulationRank = 1.
>>
>> As I mentioned, I'm not sure how this translates into PySpark, but that's
>> the general concept in SQL.
>>
>> On Mon, Dec 19
window function?
>
> On Mon, Dec 19, 2022, 9:45 AM Oliver Ruebenacker <
> oliv...@broadinstitute.org> wrote:
>
>>
>> Hello,
>>
>> Thank you for the response!
>>
>> I can think of two ways to get the largest city by country, but both
>
> loss, damage or destruction of data or any other property which may arise
> from relying on this email's technical content is explicitly disclaimed.
> The author will in no case be liable for any monetary damages arising from
> such loss, damage or destruction.
>
>
>
>
>
.
On Tue, Dec 6, 2022 at 10:47 AM Holden Karau wrote:
> Take a look at https://github.com/nielsbasjes/splittablegzip :D
>
> On Tue, Dec 6, 2022 at 7:46 AM Oliver Ruebenacker <
> oliv...@broadinstitute.org> wrote:
>
>>
>> Hello Holden,
>>
>> Thank
Dec 6, 2022 at 1:43 PM Oliver Ruebenacker <
> oliv...@broadinstitute.org> wrote:
>
>>
>> Hello Chris,
>>
>> Yes, you can use gunzip/gzip to uncompress a file created by bgzip, but
>> to start reading from somewhere other than the beginning of the file
e either of those,
> it would require writing a custom Hadoop compression codec to integrate
> more closely with the data format.
>
> Chris Nauroth
>
>
> On Mon, Dec 5, 2022 at 2:08 PM Oliver Ruebenacker <
> oliv...@broadinstitute.org> wrote:
>
>>
>>
s like Snappy are
> generally preferred for greater efficiency. (Of course, we're not always in
> complete control of the data formats we're given, so the support for bz2 is
> there.)
>
> [1]
> https://hadoop.apache.org/docs/current/hadoop-project-dist/hadoop-common/filesystem/
Hello,
Is it possible to read/write a DataFrame from/to a set of bgzipped files?
Can it read from/write to AWS S3? Thanks!
Best, Oliver
--
Oliver Ruebenacker, Ph.D. (he)
Senior Software Engineer, Knowledge Portal Network
<http://kp4cd.org/>, Flannick
Lab <http://www.flanni
gt; On 11/27/22 12:30 PM, Oliver Ruebenacker wrote:
>
>
> Hello,
>
> I have two Dataframes I want to join using a condition such that each
> record from each Dataframe may be joined with multiple records from the
> other Dataframe. This means the original records shoul
e) & \
(genes.start - padding <= variants.position) & \ (genes.end +
padding >= variants.position)gene_variants =
genes.join(variants.alias('variants'), cond, "left_outer")
print('Joining genes and variants give ' + str(gene_variants.count()) + '
pairs:')for row in g
ot; at "http://repo.akka.io/releases/;
>
> I am getting TaskResultGetter error with ClassNotFoundException for
> scala.Some .
>
> Can I please get some help how to fix it?
>
> Thanks,
> S. Sarkar
>
> --
> You received this message because you are subscribed
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