Hello i have one more problem with deploying my app by Streamlit. It works localy but when I want to upload it on git hub it doesnt work..Have no idea whats wrong. It seems that there is problem with path to the file:
"File "/app/streamlit/bobrza.py", line 14, in <module>
bobrza_locations = pd.read_csv(location)"
Here is link to my github repo. Will be very very grateful for help. Thank in advance.
https://github.com/Bordonous/streamlit
The problem is you are hard coding the path of the bobrza1.csv and route.csv to the path on your computer so when running the code on a different environment the path in not legal.
The solution is to make location independent from running environment, for this we will use the following:
__file__ variable - the path to the current python module (the .py file).
os.path.dirname() - a function to get directory name from path.
os.path.abspath() - a function to get a normalized absolutized version of path.
os.path.join() - a function to join one or more path components.
Now you need to change your location and location2 variables in the code to the following:
# get the absolute path to the directory contain the .csv file
dir_name = os.path.abspath(os.path.dirname(__file__))
# join the bobrza1.csv to directory to get file path
location = os.path.join(dir_name, 'bobrza1.csv')
# join the route.csv to directory to get file path
location2 = os.path.join(dir_name, 'route.csv')
Resulting in an independent path of the bobrza1.csv and route.csv.
Related
Currently I am working a project that has have been using the pathlib library so I can work on my Windows desktop when I need too and on my MacBook Pro. Essentially be able to work between both operating systems. I have not have any issues at all until right now. Here is the set up:
I have a pipeline set up to automatically save a .joblib and a whole lot of .png files that will go to a directory called
output_dir = Path('../Trained_Models/Differential_gene_analysis/A Kidney Cancer Transcriptome Molecular Signature Identifies Tumors with Tumor Thrombus/Models train on TCGA data and test on Rodriguez data/Oct-XX-20XX')
For example, if I want to save a .joblib file under the name RandomForest_TumorThrombus_104.joblib,I would use the command
joblib.dump(model ,output_dir / 'RandomForest_TumorThrombus_104.joblib')
On my MacBook Pro, I have no issues when this is ran, but on Windows it gives me the following error
FileNotFoundError: [Errno 2] No such file or directory: '..\\Trained_Models\\Differential_gene_analysis\\A Kidney Cancer Transcriptome Molecular Signature Identifies Tumors with Tumor Thrombus\\Models train on TCGA data and test on Rodriguez data\\Oct-17-2022\\RandomForest_TumorThrombus_104.joblib'
I have tried to use the .resolve() method to get the absolute path but still gives me the same error. I have tried to experiment to try to see what is goin on such as using os.path.exists(). When using the os.path.exists() method I get True for the follwoing command:
os.path.exists(output_dir)
So it does indeed recognize that the directory exists. The next thing I tried was to rename the file to something like dddddd.joblib and that worked. But I find that only a few names for the file would allow me to save the files. During debug I found that the most recent Traceback occurs here:
with open(filename, 'wb') as f:```
I was wondering if anyone here had any idea what was going on here and how I can fix this issue? Please and Thank you.
The solution was to enable long paths on Windows.
I have a PyQt5 (5.15.6) application running in Python 3 and want to reference my qss file as such
qss_file = QtCore.QFile("my_app_qss.qss")
However, I have multiple apps that use the same qss file so depending on where I run the app from I need an absolute import rather than a relative import. I would also like to compile any of those apps with pyinstaller and deploy them to another machine. How can I reference this qss file?
example folder structure
main
| - resources/my_app_qss.qss
| - apps/
|--------project1/app1.py
| -------project2/
|-----------------subfolder/app2.py
The issue is that I did not understand that
qss_file = QtCore.QFile("my_app_qss.qss")
Is not a path to a file. It is referencing a file that gets built by pyrcc4 from the .qrc source
I've been struggling to deploy my shiny app using the tesseractpackage. It seems that it can't 'reach' the downloaded languages. In my case: English and Dutch.
When setting up the language, the resulting object should 'point' to a path. That's the part where shiny can't open the connection.
Any help would be much appriciated!
Kind regards, R
Below I've copied the error message and the relevant code.
This is the error message I get after deployment:
Warning in file(con, "wb") :
cannot open file '/usr/share/tesseract-ocr/tessdata/nld.traineddata': Permission denied
Error in value[3L] : cannot open the connection
Calls: local ... tryCatch -> tryCatchList -> tryCatchOne ->
Execution halted
This is my code
#loading software requirement
library(tesseract)
#download language (dutch)
tesseract_download('nld')
tesseract_download('eng')
#set language parameters for later use.
dutch <- tesseract('nld')
english <- tesseract('eng')
I've managed to get it working myself. The key was taking the following steps:
Creating a subdirectory (of folder) which is called 'tessdata'. This subdirecty is the directory you can download the languages in and 'set' the languages.
When deploying your app, you have to deploy this tessdata-subdirectory as well. So in the deployement prompt, you 'tick' the boxes of this folder as well.
Then make sure the tesseract engine points at the following path:
Screenshot of how to upload the tessdata-folder along with the app
enter image description here
Please see the code below
#loading software requirementlibrary(tesseract)
#Make sure the tesseract package is 'pointing' at the right 'parent directory'
#which is in this case the path your shiny app is working from.
#That's why you need the dot ("."). Which is in essence the workdir.
Sys.setenv(TESSDAT_PREFIX = ".")
#so combining the workdir and the pre-installed folder 'tessdata'
path <- paste0(getwd(), '/tessdata')
#use this path for downloading
#download languages (dutch and english)
tesseract_download('nld', datapath = path)
tesseract_download('eng', datapath = path)
#set language parameters for later use, using the same path
dutch <- tesseract('nld', datapath = path)
english <- tesseract('eng', datapath = path)
I need to get the path of the file inside the private folder.
On my local machine I was able to get it by using the path "../../../../../", however, when I deployed to meteor server using meteor deploy, it doesn't work anymore. Also I tried to log the current directory using process.cwd() and got the following, which is different from the structure I got on my local machine:
/meteor/containers/3906c248-566e-61b7-4637-6fb724a33c16/bundle/programs/server
The directory logged from my local machine gives:
/Users/machineName/Documents/projectName/.meteor/local/build/programs/server
Note: I am using this path to setup https://www.npmjs.com/package/apn
You can use assets/app/ as the relative path. While this may not make sense on the first look Meteor re-arranges your /private directory to map to assets/app from the /programs/server directory. This is both in development and production.
Basically assume that private/ maps to assets/app/.
Call Assets.absoluteFilePath(assetPath) on one of the assets in the private folder, then chop of the name of the asset file from the string you get back, e.g., assuming you have a file called test.txt in the private folder:
var aFile = 'test.txt';// test.txt is in private folder
var aFilePath = Assets.absoluteFilePath(aFile);
var aFolder = aFilePath.substr(0, aFilePath.length - aFile.length);
console.log(aFolder);
https://docs.meteor.com/api/assets.html#Assets-absoluteFilePath
I have followed instructions to create an .ipk file, the Packages.gz and host them on a web server as a repo. I have set the opkg.conf in my other VM to point to this repo. The other VM is able to update and list the contents of repositories successfully.
But, when I try to install, I get this message. Can you please describe why I am getting this and what needs to be changed?
Collected errors:
* wfopen: /etc/repo/d1/something.py: No such file or directory
* wfopen: /etc/repo/d1/something-else.py: No such file or directory
While creating the .ipk, I had created a folder named data that had a file structure as /etc/repo/d1/ with the file something.py stored at d1 location. I zipped that folder to data.tar.gz. And, then together with control.tar.gz and 'debian-binary`, I created the .ipk.
I followed instructions from here:
http://bitsum.com/creating_ipk_packages.htm
http://www.jumpnowtek.com/yocto/Managing-a-private-opkg-repository.html
http://www.jumpnowtek.com/yocto/Using-your-build-workstation-as-a-remote-package-repository.html
It is very likely that the directory called /etc/repo/d1/ does not exist on the target system. If you create the folder manually, and try installing again, it probably will not fail. I'm not sure how to force opkg to create the empty directory by itself :/
Update:
You can solve this problem using a preinst script. Just create the missing directories on it, like this:
#!/bin/sh
mkdir -p /etc/repo/d1/
# always return 0 if success
exit 0