Closed martin-g closed 1 year ago
Hey @martin-g, thank you for reaching me out.
benchdamic
depends on too many packages by construction. As new differential abundance analysis tools will be implemented and added, new dependencies will be necessary for the package to work. This error is generated by one of them: the MAST
package. Indeed, the error says:
Error in ebayes(t(assay(sca, exprs_values)), ebayesControl, model.matrix(Formula, : Hyper parameter estimation might have failedERROR: ABNORMAL_TERMINATION_IN_LNSRCH Calls: DA_MAST -> <Anonymous> -> ebayes Execution halted
the function that has generated it should be MAST::zlm
with the argument method = "bayesglm
.
Let me know if I can help you more. Matteo
Thank you for the response, @mcalgaro93 !
I've tested MAST and its CMD check
also failed - https://github.com/RGLab/MAST/issues/179.
I'm closing this issue for now! I will re-test benchdamic
once the MAST issue is resolved. If there is another issue then I will open a new issue.
Hello,
There is an initiative to support Linux ARM64 for Bioconductor. Probably for 3.18.
R CMD check benchdamic_1.5.2.tar.gz
fails with this output:Everything is OK on the currently supported platforms - https://bioconductor.org/checkResults/3.17/bioc-LATEST/benchdamic/ !
Any idea what might be the problem ?