slr: MISSING even after trying ete3_external_apps and upgrade-external-tools
Dear users, although I have experience with conda installations, this is my first time trying to install ete, when I check the install I got this error.
ete3 build check
Current Toolchain path: /home/tucu/miniconda3/envs/etekit/bin/ete3_apps/bin
Current Toolchain version: unknown
clustalo: OK - 1.2.4
codeml: OK - AAML in paml version 4.8a, July 2014
dialigntx: OK - This is DIALIGN-TX Version 1.0.2 - A Multiple Sequence alignment program.
fasttree: OK - Usage for FastTree version 2.1.8 Double precision (No SSE3), OpenMP (1 threads):
iqtree: OK - IQ-TREE multicore version 1.5.5 for Linux 64-bit built Jun 2 2017
kalign: OK - Kalign version 2.04, Copyright (C) 2004, 2005, 2006 Timo Lassmann
mafft: OK - MAFFT v6.861b (2011/09/24)
muscle: OK - MUSCLE v3.8.31 by Robert C. Edgar
phyml: OK - . This is PhyML version 20160115.
pmodeltest: OK - pmodeltest.py v1.4
raxml: OK - This is RAxML version 8.2.11 released by Alexandros Stamatakis on June 2017.
raxml-pthreads: OK - This is RAxML version 8.2.11 released by Alexandros Stamatakis on June 2017.
readal: OK - readAl v1.4.rev6 build[2012-02-02]
slr: MISSING
statal: OK - statAl v1.4.rev6 build[2012-02-02]
tcoffee: OK - PROGRAM: T-COFFEE Version_11.00.8cbe486 (2014-08-12 22:05:29 - Revision 8cbe486 - Build 477)
trimal: OK - trimAl v1.4.rev6 build[2012-02-02]
Neither of these solutions seem to work
Install using conda (recomended):
conda install -c etetoolkit ete3_external_apps
or manually compile by running:
ete3 upgrade-external-tools
`conda install -c etetoolkit ete3_external_apps Collecting package metadata (current_repodata.json): done Solving environment: failed with initial frozen solve. Retrying with flexible solve. Solving environment: failed with repodata from current_repodata.json, will retry with next repodata source. Collecting package metadata (repodata.json): done Solving environment: failed with initial frozen solve. Retrying with flexible solve. Solving environment: | Found conflicts! Looking for incompatible packages. This can take several minutes. Press CTRL-C to abort. failed
UnsatisfiableError: The following specifications were found to be incompatible with each other:
Output in format: Requested package -> Available versions `
I am using miniconda and Ubuntu (14.04, it is not my machine ATM).
I installed everything in a new environment created like this
conda create --name etekit python=2
I didn't setup any channels before installing ete but I wonder if I can install everything from scratch to solve this missing package issue Thanks for your help
Cheers