From 088369b439eb30c51bffc53a581c5984f469e217 Mon Sep 17 00:00:00 2001
From: Riccardo Bertossa <rbertoss@materys.com>
Date: Sat, 28 Dec 2024 12:23:59 +0000
Subject: [PATCH] updating ci, removed np.array on ckeys

addressed ci message:

    Your workflow is using a version of actions/cache that is scheduled for deprecation, actions/cache@v1. Please update your workflow to use either v3 or v4
---
 .github/workflows/ci.yml         | 12 ++++++------
 sportran/i_o/read_lammps_dump.py |  2 +-
 sportran/i_o/read_lammps_log.py  |  2 +-
 sportran/i_o/read_tablefile.py   |  2 +-
 4 files changed, 9 insertions(+), 9 deletions(-)

diff --git a/.github/workflows/ci.yml b/.github/workflows/ci.yml
index 864840d..a24f2ec 100644
--- a/.github/workflows/ci.yml
+++ b/.github/workflows/ci.yml
@@ -9,11 +9,11 @@ jobs:
 
     steps:
     - name: Checkout
-      uses: actions/checkout@v2
+      uses: actions/checkout@v4
 
     - name: Cache python dependencies
       id: cache-pip
-      uses: actions/cache@v1
+      uses: actions/cache@v4
       with:
         path: ~/.cache/pip
         key: pip-pre-commit-${{ hashFiles('**/setup.json') }}
@@ -21,7 +21,7 @@ jobs:
           pip-pre-commit-
 
     - name: Set up Python 3.9
-      uses: actions/setup-python@v2
+      uses: actions/setup-python@v5
       with:
         python-version: '3.9'
 
@@ -43,11 +43,11 @@ jobs:
 
     steps:
     - name: Checkout
-      uses: actions/checkout@v2
+      uses: actions/checkout@v4
 
     - name: Cache python dependencies
       id: cache-pip
-      uses: actions/cache@v1
+      uses: actions/cache@v4
       with:
         path: ~/.cache/pip
         key: pip-pre-commit-${{ hashFiles('**/setup.json') }}
@@ -55,7 +55,7 @@ jobs:
           pip-pre-commit-
 
     - name: Set up Python ${{ matrix.python-version }}
-      uses: actions/setup-python@v2
+      uses: actions/setup-python@v5
       with:
         python-version: ${{ matrix.python-version }}
 
diff --git a/sportran/i_o/read_lammps_dump.py b/sportran/i_o/read_lammps_dump.py
index c3908d5..89d6807 100644
--- a/sportran/i_o/read_lammps_dump.py
+++ b/sportran/i_o/read_lammps_dump.py
@@ -144,7 +144,7 @@ def _read_ckeys(self, group_vectors=True, preload_timesteps=True):
             line = self.file.readline()
             if len(line) == 0:   # EOF
                 raise RuntimeError('Reached EOF, no ckeys found.')
-            values = np.array(line.split())
+            values = line.split()
             if (values[0] == 'ITEM:'):
                 if (values[1] == 'TIMESTEP'):
                     self.current_timestep = int(self.file.readline())
diff --git a/sportran/i_o/read_lammps_log.py b/sportran/i_o/read_lammps_log.py
index c58a7e6..ea79052 100755
--- a/sportran/i_o/read_lammps_log.py
+++ b/sportran/i_o/read_lammps_log.py
@@ -231,7 +231,7 @@ def _read_ckeys(self, run_keyword, group_vectors=True):
             nlines += 1
             if len(line) == 0:   # EOF
                 raise RuntimeError('Reached EOF, no ckeys found.')
-            values = np.array(line.split())
+            values = line.split()
             # find the column headers line
             if (len(values) and (is_string(values[0])) and (values[0] == 'Step')):
                 log.write_log('  column headers found at line {:d}. Reading data...'.format(nlines))
diff --git a/sportran/i_o/read_tablefile.py b/sportran/i_o/read_tablefile.py
index c58be04..ebf4ebd 100644
--- a/sportran/i_o/read_tablefile.py
+++ b/sportran/i_o/read_tablefile.py
@@ -191,7 +191,7 @@ def _read_ckeys(self, group_vectors=True):
             line = self.file.readline()
             if len(line) == 0:   # EOF
                 raise RuntimeError('Reached EOF, no ckeys found.')
-            values = np.array(line.split())
+            values = line.split()
             # text line: read variables names and save indexes in ckey
             if (is_string(values[0]) and (values[0].find('#') < 0)):
                 self.header += line[:-1]