Comments (13)
Probably pmxTools. Or here if we want to use a non xml method. @kestrel99 mentioned a non xml method that @RikSchoemaker uses
from babelmixr2.
As I've looked more, it's not an easily-fixable issue either place. The XML file appears to be missing not just some of the closing tags but also some of the needed data. Having it throw an error is likely the best path. We may want to make the error clearer, but otherwise, I think we can leave it for now.
from babelmixr2.
I'll fix it when I get back. In the meantime can you flag it on the pmxTools GitHub page so I don't forget? (I think a clear error about it being malformed XML is the best.)
from babelmixr2.
xml reader is used to calculate
- nonmem run time
- nmtran message
- termination message
- covariance information
from babelmixr2.
The lst reader gives
- termination message
- ofv
from babelmixr2.
Covariance comes pretty easily from reading the .cov file. I don't know if run time comes easily from another source (though I also don't think it seems to be required...).
from babelmixr2.
I am writing a .lst
parser right now (since most of the ddmore files don't contain .ext
files), I can get the run time from that parser. I looked at pmxTools
.lst
parser and it doesn't get as much as I thought it did.
from babelmixr2.
PsN has a .lst parser that covers a lot of the potential issues that come up in edge cases. You may want to look at it while you're at it.
from babelmixr2.
Also, I think that the .cov file has more precision than the .lst file for the covariance matrix (i.e. more significant figures).
from babelmixr2.
After thinking a bit, all I will extract is the parameter estimates for now. lst
parsing is a pain.
from babelmixr2.
if you are looking
from babelmixr2.
That's about what I remembered.
from babelmixr2.
Write the parser in nonmem2rx
from babelmixr2.
Related Issues (20)
- Work with new `nonmem2rx`
- translation of non mu referenced model
- model with non informative ETA or if statement HOT 2
- `popED` interface
- `as.nlmixr2` for `monolix2rx` objects
- CRAN has wrong URL for babelmixr2 HOT 6
- Requesting an example converting rxode2 to NONMEM HOT 10
- Don't run NONMEM or Monolix, just create files
- `as.nlmixr2.nonmem2rx` doesn't apply back-transformations... HOT 1
- Remove rxode2parse
- Using monolixModel and nonmemModel attributes HOT 12
- Algebraic Mu referencing from nlmixr2est HOT 1
- `safeZero=FALSE` for NONMEM (maybe even Monolix?)
- Bioavailability calculation not set before bioavailability NONMEM line of code HOT 3
- Feature request: Add comment before NONMEM zero-division protection if blocks
- Feature request: add censoring methods for NONMEM conversion HOT 2
- `tableControl(cwres=TRUE)`
- `as.nlmixr2` should fail with a better message when `eps1` or `err1` is present in the model
- Minpack.lm
- rxode2 -> nlmixr2 HOT 3
Recommend Projects
-
React
A declarative, efficient, and flexible JavaScript library for building user interfaces.
-
Vue.js
🖖 Vue.js is a progressive, incrementally-adoptable JavaScript framework for building UI on the web.
-
Typescript
TypeScript is a superset of JavaScript that compiles to clean JavaScript output.
-
TensorFlow
An Open Source Machine Learning Framework for Everyone
-
Django
The Web framework for perfectionists with deadlines.
-
Laravel
A PHP framework for web artisans
-
D3
Bring data to life with SVG, Canvas and HTML. 📊📈🎉
-
Recommend Topics
-
javascript
JavaScript (JS) is a lightweight interpreted programming language with first-class functions.
-
web
Some thing interesting about web. New door for the world.
-
server
A server is a program made to process requests and deliver data to clients.
-
Machine learning
Machine learning is a way of modeling and interpreting data that allows a piece of software to respond intelligently.
-
Visualization
Some thing interesting about visualization, use data art
-
Game
Some thing interesting about game, make everyone happy.
Recommend Org
-
Facebook
We are working to build community through open source technology. NB: members must have two-factor auth.
-
Microsoft
Open source projects and samples from Microsoft.
-
Google
Google ❤️ Open Source for everyone.
-
Alibaba
Alibaba Open Source for everyone
-
D3
Data-Driven Documents codes.
-
Tencent
China tencent open source team.
from babelmixr2.