dmbates/nlreg.jl

Nonlinear regression in Julia

nlreg.jl's Issues

To Do for SimpleNLMM

• Use an orthogonality convergence criterion in pnls!
• Store nm.u after pnls! at initial beta and theta and use it for starting nm.u in later pnls!
• Add an external constructor taking a NonlinearLS object.

[PackageEvaluator.jl] Your package NLreg may have a testing issue.

This issue is being filed by a script, but if you reply, I will see it.

PackageEvaluator.jl is a script that runs nightly. It attempts to load all Julia packages and run their test (if available) on both the stable version of Julia (0.2) and the nightly build of the unstable version (0.3).

The results of this script are used to generate a package listing enhanced with testing results.

The status of this package, NLreg, on...

• Julia 0.2 is 'Package doesn't load.'
• Julia 0.3 is 'Package doesn't load.'

'No tests, but package loads.' can be due to their being no tests (you should write some if you can!) but can also be due to PackageEvaluator not being able to find your tests. Consider adding a test/runtests.jl file.

'Package doesn't load.' is the worst-case scenario. Sometimes this arises because your package doesn't have BinDeps support, or needs something that can't be installed with BinDeps. If this is the case for your package, please file an issue and an exception can be made so your package will not be tested.

This automatically filed issue is a one-off message. Starting soon, issues will only be filed when the testing status of your package changes in a negative direction (gets worse). If you'd like to opt-out of these status-change messages, reply to this message.

build errors

julia> Pkg.add("NLreg")
INFO: Cloning cache of NLopt from git://github.com/JuliaOpt/NLopt.jl.git
INFO: Cloning cache of NLreg from git://github.com/dmbates/NLreg.jl.git
INFO: Installing NLopt v0.0.3
INFO: Installing NLreg v0.1.0
INFO: Building Homebrew
HEAD is now at c588ffb Remove git rebasing code that slipped through
HEAD is now at 1b85de5 Update netcdf bottle
INFO: Building NLopt
==> Downloading http://archive.org/download/julialang/bottles/nlopt-2.4.mavericks.bottle.1.tar.gz

################################################################################################################################ 100.0%

==> Pouring nlopt-2.4.mavericks.bottle.1.tar.gz
🍺 /Users/gustavolacerda/.julia/v0.3/Homebrew/deps/usr/Cellar/nlopt/2.4: 14 files, 1.0M
==============================================================[ ERROR: NLopt ]===============================================================

Provider PackageManager failed to satisfy dependency libnlopt
while loading /Users/gustavolacerda/.julia/v0.3/NLopt/deps/build.jl, in expression starting on line 54

==============================================================[ BUILD ERRORS ]===============================================================

WARNING: NLopt had build errors.

• packages with build errors remain installed in /Users/gustavolacerda/.julia/v0.3
• build a package and all its dependencies with Pkg.build(pkg)
• build a single package by running its deps/build.jl script

INFO: Package database updated

Finalize PLregMod and gpfit from gpincr

• Decide what should be stored in PLregMod from MM (model matrix for conditionally linear parameters) and MMgrad (gradient of MM w.r.t. the nonlinear parameters)
• Create gpfit from gpincr.

What happened to the docs?

Docs link broken

[PkgEval] NLreg may have a testing issue on Julia 0.4 (2014-10-28)

PackageEvaluator.jl is a script that runs nightly. It attempts to load all Julia packages and run their tests (if available) on both the stable version of Julia (0.3) and the nightly build of the unstable version (0.4). The results of this script are used to generate a package listing enhanced with testing results.

On Julia 0.4

• On 2014-10-27 the testing status was Package doesn't load.
• On 2014-10-28 the testing status changed to Tests fail, but package loads.

Tests fail, but package loads. means that PackageEvaluator found the tests for your package, executed them, and they didn't pass. However, trying to load your package with using worked.

Package doesn't load. means that PackageEvaluator did not find tests for your package. Additionally, trying to load your package with using failed.

This issue was filed because your testing status became worse. No additional issues will be filed if your package remains in this state, and no issue will be filed if it improves. If you'd like to opt-out of these status-change messages, reply to this message saying you'd like to and @IainNZ will add an exception. If you'd like to discuss PackageEvaluator.jl please file an issue at the repository. For example, your package may be untestable on the test machine due to a dependency - an exception can be added.

Test log:

>>> 'Pkg.add("NLreg")' log

WARNING: deprecated syntax "{}" at /home/idunning/pkgtest/.julia/v0.4/BinDeps/src/BinDeps.jl:103.
Use "[]" instead.

WARNING: deprecated syntax "{}" at /home/idunning/pkgtest/.julia/v0.4/BinDeps/src/BinDeps.jl:104.
Use "[]" instead.

WARNING: deprecated syntax "(String=>String)[]" at /home/idunning/pkgtest/.julia/v0.4/BinDeps/src/BinDeps.jl:146.
Use "Dict{String,String}()" instead.

WARNING: deprecated syntax "(String=>String)[]" at /home/idunning/pkgtest/.julia/v0.4/BinDeps/src/BinDeps.jl:147.
Use "Dict{String,String}()" instead.

WARNING: deprecated syntax "(String=>String)[]" at /home/idunning/pkgtest/.julia/v0.4/BinDeps/src/BinDeps.jl:148.
Use "Dict{String,String}()" instead.

WARNING: deprecated syntax "(String=>String)[]" at /home/idunning/pkgtest/.julia/v0.4/BinDeps/src/BinDeps.jl:149.
Use "Dict{String,String}()" instead.

WARNING: deprecated syntax "{}" at /home/idunning/pkgtest/.julia/v0.4/BinDeps/src/dependencies.jl:87.
... truncated ...
WARNING: deprecated syntax "{a=>b for (a,b) in c}" at /home/idunning/pkgtest/.julia/v0.4/BinDeps/src/dependencies.jl:256.
Use "Dict{Any,Any}([a=>b for (a,b) in c])" instead.

WARNING: deprecated syntax "{}" at /home/idunning/pkgtest/.julia/v0.4/BinDeps/src/dependencies.jl:352.
Use "[]" instead.

WARNING: deprecated syntax "(Symbol=>Any)[]" at /home/idunning/pkgtest/.julia/v0.4/BinDeps/src/dependencies.jl:383.
Use "Dict{Symbol,Any}()" instead.

WARNING: deprecated syntax "{a=>b, ...}" at /home/idunning/pkgtest/.julia/v0.4/BinDeps/src/dependencies.jl:387.
Use "Dict{Any,Any}(a=>b, ...)" instead.

WARNING: deprecated syntax "(Any=>Any)[]" at /home/idunning/pkgtest/.julia/v0.4/BinDeps/src/dependencies.jl:494.
Use "Dict{Any,Any}()" instead.

WARNING: deprecated syntax "(Any=>Any)[]" at /home/idunning/pkgtest/.julia/v0.4/BinDeps/src/dependencies.jl:555.
Use "Dict{Any,Any}()" instead.

WARNING: deprecated syntax "(Any=>Any)[]" at /home/idunning/pkgtest/.julia/v0.4/BinDeps/src/dependencies.jl:660.
Use "Dict{Any,Any}()" instead.

WARNING: deprecated syntax "{}" at /home/idunning/pkgtest/.julia/v0.4/BinDeps/src/dependencies.jl:889.
Use "[]" instead.

WARNING: deprecated syntax "{}" at /home/idunning/pkgtest/.julia/v0.4/BinDeps/src/dependencies.jl:959.
Use "[]" instead.

WARNING: deprecated syntax "{}" at /home/idunning/pkgtest/.julia/v0.4/BinDeps/src/debug.jl:51.
Use "[]" instead.
INFO: Installing ArrayViews v0.4.8
INFO: Installing BinDeps v0.3.6
INFO: Installing DataArrays v0.2.5
INFO: Installing DataFrames v0.5.11
INFO: Installing Distributions v0.5.5
INFO: Installing GZip v0.2.13
INFO: Installing MathProgBase v0.3.2
INFO: Installing NLopt v0.1.3
INFO: Installing NLreg v0.1.1
INFO: Installing NumericExtensions v0.6.2
INFO: Installing NumericFuns v0.2.3
INFO: Installing PDMats v0.2.4
INFO: Installing Reexport v0.0.2
INFO: Installing SHA v0.0.3
INFO: Installing SortingAlgorithms v0.0.2
INFO: Installing StatsBase v0.6.8
INFO: Installing URIParser v0.0.3
INFO: Building NLopt
INFO: Package database updated
INFO: METADATA is out-of-date a you may not have the latest version of NLreg
INFO: Use `Pkg.update()` to get the latest versions of your packages

>>> 'using NLreg' log
Warning: could not import Base.evaluate into StatsBase
Julia Version 0.4.0-dev+1330
Commit 7fdc860 (2014-10-28 03:56 UTC)
Platform Info:
  System: Linux (x86_64-unknown-linux-gnu)
  CPU: Intel(R) Xeon(R) CPU E5-2650 0 @ 2.00GHz
  WORD_SIZE: 64
  BLAS: libopenblas (USE64BITINT DYNAMIC_ARCH NO_AFFINITY Sandybridge)
  LAPACK: libopenblas
  LIBM: libopenlibm
  LLVM: libLLVM-3.3

>>> test log
Warning: could not import Base.evaluate into StatsBase
ERROR: `-` has no method matching -(::Uint8, ::Char)
 in bytestotype at /home/idunning/pkgtest/.julia/v0.4/DataFrames/src/dataframe/io.jl:410
 in builddf at /home/idunning/pkgtest/.julia/v0.4/DataFrames/src/dataframe/io.jl:570
 in readtable! at /home/idunning/pkgtest/.julia/v0.4/DataFrames/src/dataframe/io.jl:783
 in readtable at /home/idunning/pkgtest/.julia/v0.4/DataFrames/src/dataframe/io.jl:868
 in readtable at /home/idunning/pkgtest/.julia/v0.4/DataFrames/src/dataframe/io.jl:935
 in include at ./boot.jl:242
 in include_from_node1 at loading.jl:128
 in process_options at ./client.jl:293
 in _start at ./client.jl:362
 in _start_3B_3769 at /home/idunning/julia04/usr/bin/../lib/julia/sys.so
while loading /home/idunning/pkgtest/.julia/v0.4/NLreg/test/runtests.jl, in expression starting on line 4


INFO: Testing NLreg
================================[ ERROR: NLreg ]================================

failed process: Process(`/home/idunning/julia04/usr/bin/julia /home/idunning/pkgtest/.julia/v0.4/NLreg/test/runtests.jl`, ProcessExited(1)) [1]

================================================================================
INFO: No packages to install, update or remove
ERROR: NLreg had test errors
 in error at error.jl:21
 in test at pkg/entry.jl:719
 in anonymous at pkg/dir.jl:28
 in cd at ./file.jl:20
 in cd at pkg/dir.jl:28
 in test at pkg.jl:68
 in process_options at ./client.jl:221
 in _start at ./client.jl:362
 in _start_3B_3769 at /home/idunning/julia04/usr/bin/../lib/julia/sys.so

>>> end of log

Fails to load on 0.2

http://status.julialang.org/

I'm guessing because its dependent on 0.3 features, which is totally OK, I'd just ask that you update your requirements and tag a new version.

NLreg won't load [Julia v1.4]