Merge remote-tracking branch 'upstream/main' into main

Author: chyumin

klusta/Dockerfile

@@ -0,0 +1,12 @@
+FROM python:3.7
+
+RUN apt update && apt install -y build-essential 
+
+# downgrade pip version to avoid dependency issues during installations
+RUN pip install --no-input pip==21.2.4
+
+RUN pip install numpy
+
+# Install Klusta
+RUN pip install Cython h5py tqdm six scipy
+RUN pip install click klusta klustakwik2==0.2.7

klusta/build.sh

@@ -0,0 +1,3 @@
+#!/bin/bash
+
+docker build -t spikeinterface/klusta-base:0.2.7 .

klusta/push.sh

@@ -0,0 +1,3 @@
+#!/bin/bash
+
+docker push spikeinterface/klusta-base:0.2.7

mountainsort4/Dockerfile

@@ -1,6 +1,9 @@
 FROM python:3.8
 
+# downgrade pip version to avoid dependency issues during installations
+RUN pip install --no-input pip==21.2.4
+
 RUN pip install numpy
 
 # Install MountainSort4
-RUN pip install mountainsort4==1.0.0
+RUN pip install mountainsort4==1.0.0

spykingcircus/Dockerfile

@@ -1,5 +1,8 @@
 FROM python:3.8
 
+# downgrade pip version to avoid dependency issues during installations
+RUN pip install --no-input pip==21.2.4
+
 RUN pip install numpy
 
 # Install SpyKING CIRCUS

tridesclous/Dockerfile

@@ -1,11 +1,21 @@
 FROM python:3.8
 
-RUN pip install numpy
+# downgrade pip version to avoid dependency issues during installations
+RUN pip install --no-input pip==21.2.4
+
+
 
 # Install prerequisites
 RUN apt-get update && apt-get install -y libgl1-mesa-glx
+
+# need to force some version
+RUN pip install numpy==1.20
+RUN pip install numba
+RUN pip install git+https://github.com/scikit-learn-contrib/hdbscan.git
+
+
 RUN pip install Cython
-RUN pip install scipy numpy pandas scikit-learn matplotlib seaborn tqdm openpyxl quantities neo numba hdbscan
+RUN pip install scipy pandas scikit-learn matplotlib seaborn tqdm openpyxl quantities neo
 RUN pip install h5py
 RUN pip install loky