tabix | Open source simple business intelligence application | Business library
kandi X-RAY | tabix Summary
kandi X-RAY | tabix Summary
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Top functions reviewed by kandi - BETA
- Overlay the content of a page
- Get all available hooks available .
- Listen for textdown events .
- Checks if the selection is multi - selection
- Dummy cell
- lookup for prototype
- Sets a new S .
- Abstract function implementation .
- Gets the column header height of the column .
- if value is not defined
tabix Key Features
tabix Examples and Code Snippets
Community Discussions
Trending Discussions on tabix
QUESTION
I am writing a serialization through ST and it should put several vars/nodes into one XML tag.
Input ABAP itab that should be serialized:
...ANSWER
Answered 2020-Jul-13 at 19:04If you have schema (xsd) file, you can convert it to wsdl with report SPROX_XSD2WSDL
then create service consumer with it. You can use below code to use this service consumer for getting xml from auto generated trasform (Also you can check this transform for getting hint for your solution).
QUESTION
I have a development laptop (Mint 19.3
), and a test server (Ubuntu 18.04.4 LTS
).
The laptop is Docker version 19.03.5, build 633a0ea838
, the server is Docker version 19.03.12, build 48a66213fe
I'm running Python 3.6 code inside the container, which uses subprocess
(code below) to create an sshfs mount to a third server, after which the python code walks through the mounted directory.
Everything works fine on my development laptop. But on the server, the directory mounts (and is seen with the mount
command) however cd'ing into the directory just hangs, and the Python code's subsequent walk
just hangs. (NOTE: The python code never crashes or errors out. It just hangs forever.)
HOWEVER, if I manually use the same sshfs command at the container's command line, the directory works fine.
I'm at a loss as to how to troubleshoot this.
===2020-09-25 UPDATE===
OK. Since the Python code uses subprocess, the sshfs mount is obviously available to any terminal windows that wants to use it.
I have tried accessing the mount from a new terminal window inside the container, but when I cd to the mount - the window just freezes.
Well, I left everything sitting overnight - and now when I try to cd into the mount ... it works. It's like the mount has to sit for hours before it will work.
Any ideas?
Python code
...ANSWER
Answered 2020-Dec-13 at 10:51I am assuming you want to mount some server's directory to container's filesystem using SSHFS. You could add that instruction to the Dockerfile:
QUESTION
I am working on a bioinformatics project that involves very big NarrowPeak formated files that look like this:
(the columns are 'chrom ,chromStart, chromEnd, name, score ,strand, signalValue ,pValue, qValue ,peak')
...ANSWER
Answered 2020-Oct-12 at 17:08Pandas is serious overkill. If you are using tabix
for your querying too, with a command sequence like:
QUESTION
I have a pipeline which uses a global singularity image and rule-based conda wrappers.
However, some of the tools don't have wrappers (i.e. htslib
's bgzip
and tabix
).
Now I need to learn how to run jobs in containers.
In the official documentation link it says:
"Allowed image urls entail everything supported by singularity (e.g.,
shub://
anddocker://
)."
Now I've tried the following image from singularity hub but I get an error:
minimal reproducible example:config.yaml
...ANSWER
Answered 2020-Sep-24 at 17:38Using another container solves the issue; however, the fact I'm getting errors from biocontainers
is troubling given that these are both very common and used as examples in the literature so I will award the top-answer to whomever can solve that specific issue.
As it were, the use of stackleader/bgzip-utility
solve the issue of actually running this rule in a container.
QUESTION
I have very recently started using Snakemake.
What I am trying to achieve is this: I have some samples
which need to be modified, independently (rule index_vcf
). Then, groups of samples are the input of another rule (analyse
), and we get an output for each group in groups
.
I would like the second rule to run two commands:
...ANSWER
Answered 2020-Jun-11 at 18:31Firstly you need to correct misprints (e.g. there is a string that has no closeing quote). Next, there is a logical error in that no rule produces anything that matches the pattern "../out/{group}.out"
. Did you mean "../data/{group}.out"
?
Now the main part. This is an invalid syntax:
QUESTION
I have a file in VCF format with several info in 8th column:
...ANSWER
Answered 2019-Nov-21 at 14:47Could you please try following.
QUESTION
I would like to convert the method below to a nested FOR instead of a nested LOOP, but I don't know how to do it since the inner table is dynamic (it can be one of 5 different types).
...ANSWER
Answered 2019-Sep-25 at 16:00My answer was checked for ABAP 7.52. Unfortunately, it's currently only possible to use a subset of the static variant of ASSIGN
by using LET = writable_expression IN
inside a construction expression (including "FOR
" table iterations), where the "writable expression" is limited to a table expression, NEW and CAST. So it's rather limited, there are no equivalences for the dynamic variants of ASSIGN
, so you can use only workarounds.
The syntax after WHERE
allows a dynamic expression, so it will be possible to enter WHERE ('LGART = KNOWN_LINE-LGART')
. However, it could be very counter-performing if the loop is nested inside another loop (as it is in your case), so an index should be defined so that to accelerate the iteration. If a secondary index is to be used, then the condition should be USING KEY ('KEYNAME') WHERE ('LGART = KNOWN_LINE-LGART')
.
Now, here is a workaround for your particular case: you define statically the names of the components, so one possibility is to define a static structure with those component names and use the CORRESPONDING
construction operator. Note that I didn't test it, but I think for several reasons that the performance of using CORRESPONDING
is faster in your case than using ASSIGN
.
The following code should work. I assume that the internal table behind has a primary key sorted by
LGART
(TYPE SORTED TABLE OF ... WITH NON-UNIQUE KEY lgart
) so that the performance is good:
QUESTION
I'm trying to make a simple way to create all of the sub-directories needed for the workflow in one rule. However, I'm getting a ChildIOException
which makes no sense to me whenever I try to execute a rule that creates all of the required directories at the top of the workflow:
ANSWER
Answered 2019-Sep-08 at 10:15I see three options;
- Just to do
mkdir -p
in thevcf_split1_23
rule. (this doesn't fail when the dir already exists) . - Make the directories with python outside of any rule; e.g.
os.mkdir("filtered_vcf")
. - Instead of specifying the directories you want to make as output, specify them as params:
QUESTION
I am trying to connect to a local ClickhouseDB from my application to execute some raw queries. The problem arises when I try to open the connection. It never returns from the method call.
The ClickhouseDB is started within a docker container.
...ANSWER
Answered 2019-Aug-14 at 15:12It looks like the connection string that you are using is not correct.
Take out the "port" key and append the port number to the server (which you have named 'host' right now) key like so:
"Server=127.0.0.1,8123;User=default;Password=;Database=default;Compress=True;CheckCompressedHash=False;SocketTimeout=60000000;Compressor=lz4"
Thanks, Gary
QUESTION
I need to use each line of the file tissuesused.txt
as an input for a parallelized rule in snakemake. I think there are about 48 jobs I would like to call in total.
ANSWER
Answered 2019-Aug-21 at 19:26I think what you are looking for are checkpoints in Snakemake. Take a look at this example:
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