Following table contains packages I worked on by July, 16, 2015 (starting from June, 15):
Package | Notes |
---|---|
librostlab | |
librostlab-blast | |
libzerg | |
libzerg-perl | |
librg-blast-parser-perl | |
librg-utils-perl |
package foo.common.algorithms.geometry | |
import foo.common.structures.geometry.{ | |
Simplex, | |
GeometryVector, | |
InfiniteVector, PointPosition | |
} | |
object ManifoldUtils { |
from prody import * | |
pdb = parsePDB("1QS3") | |
def sliding_window(aminoacids, width=3): | |
""" | |
iterates over residues in given chain, returns iterator | |
with arrays containing each width elements (as a sliding window) | |
""" | |
index = 1 # prody starts iteration from 1, or at least it seems |
"""Alternative aminoacid to SMILES convertor | |
If you want to check how it works, simply run | |
``` | |
python aa_convertor.py | |
``` | |
When called this way, module expects that rdkit is installed, however simple | |
module import and function call shouldn't fail when it is not. | |
This module should be compatible with python 2 & 3. |
type C0{T} | |
super :: T#base obj | |
x :: Int#subtype fields | |
function C0(x::Int, y::Int) | |
new(T(x), y) # вызвали конструктор базового типа, если надо, ну и добавили сложную логику | |
end | |
end | |
function convert{T}(::Type{C0{T}}, x::Int, y::Int) | |
C0{T}(x, y) |
#!/bin/sh | |
# autopkgtest check: build and run pymol scripts from directory and subdirectories | |
# ignores errors appearing inside PYMOL command line, checks if message | |
# "PyMOL: normal program termination." present in pymol's output. | |
# Author: Tatiana Malygina <merlettaia@gmail.com> | |
set -e | |
testsdir="$(cd "$1" && pwd)" | |
echo "work with $testsdir" |
Following table contains packages I worked on by July, 16, 2015 (starting from June, 15):
Package | Notes |
---|---|
librostlab | |
librostlab-blast | |
libzerg | |
libzerg-perl | |
librg-blast-parser-perl | |
librg-utils-perl |
Following table contains packages I worked on by June, 15, 2015:
Package | What I did |
---|---|
Concavity | 1 test + 1 serious bug fixed |
Conservation-code | 2 tests + 1 small patch |
Dssp | 1 test + example files |
Profbval | 1 test |
Tm-align | 1 test (for both TMalign and TMscore) + example files |
Predictnls | 1 test |
Timeline for "General quality assurance of biomedical applications inside Debian" - from May 23, 2016 to August 23, 2016.
The task is to do Quality Assurance on any Debian Med packages by verifying runtime tests and autopkgtests as well as checking for lintian issues, hardening options and code review.
Following table contains minimal possible timeline:
Week | Packages sheduled |
---|---|
May 23 - May 29 | Dssp, Profbval,(+Tm-align) |
May 30 - June 5 | Pdb2pqr, R-cran-bio3d |
# -*- mode: ruby -*- | |
# vi: set ft=ruby : | |
# All Vagrant configuration is done below. The "2" in Vagrant.configure | |
# configures the configuration version (we support older styles for | |
# backwards compatibility). Please don't change it unless you know what | |
# you're doing. | |
Vagrant.configure(2) do |config| | |
# The most common configuration options are documented and commented below. | |
# For a complete reference, please see the online documentation at |