pdb-tools 2.4.12__py3-none-any.whl → 2.5.1__py3-none-any.whl

{pdb_tools-2.4.12.dist-info → pdb_tools-2.5.1.dist-info}/METADATA

@@ -1,6 +1,6 @@
-Metadata-Version: 2.1
+Metadata-Version: 2.4
 Name: pdb-tools
-Version: 2.4.12
+Version: 2.5.1
 Summary: A swiss army knife for PDB files.
 Home-page: http://bonvinlab.org/pdb-tools
 Author: Joao Rodrigues
@@ -9,20 +9,30 @@ License: Apache Software License, version 2
 Project-URL: Bug Reports, https://github.com/haddocking/pdb-tools/issues
 Project-URL: Source, https://github.com/haddocking/pdb-tools
 Keywords: bioinformatics protein structural-biology pdb
-Platform: UNKNOWN
 Classifier: Development Status :: 5 - Production/Stable
 Classifier: Intended Audience :: Science/Research
 Classifier: Topic :: Scientific/Engineering
 Classifier: Topic :: Scientific/Engineering :: Chemistry
 Classifier: Topic :: Scientific/Engineering :: Bio-Informatics
-Classifier: License :: OSI Approved :: Apache Software License
-Classifier: Programming Language :: Python :: 2
-Classifier: Programming Language :: Python :: 2.7
-Classifier: Programming Language :: Python :: 3
-Classifier: Programming Language :: Python :: 3.6
-Classifier: Programming Language :: Python :: 3.7
+Classifier: Programming Language :: Python :: 3.9
+Classifier: Programming Language :: Python :: 3.10
+Classifier: Programming Language :: Python :: 3.11
+Classifier: Programming Language :: Python :: 3.12
+Classifier: Programming Language :: Python :: 3.13
+Classifier: Programming Language :: Python :: 3.14
 Description-Content-Type: text/markdown
 License-File: LICENSE
+Dynamic: author
+Dynamic: author-email
+Dynamic: classifier
+Dynamic: description
+Dynamic: description-content-type
+Dynamic: home-page
+Dynamic: keywords
+Dynamic: license
+Dynamic: license-file
+Dynamic: project-url
+Dynamic: summary
 
 # pdb-tools
 
@@ -176,5 +186,3 @@ or a new tools, read our `CONTRIBUTING` instructions [here](https://github.com/h
 ## License
 `pdb-tools` are open-source and licensed under the Apache License, version 2.0.
 For details, see the LICENSE file.
-
-

pdb_tools-2.5.1.dist-info/RECORD

@@ -0,0 +1,55 @@
+pdb_tools-2.5.1.dist-info/licenses/LICENSE,sha256=cT2RbiAZ-YA-Vr_FpRv5cgvS3zh_KjQlBnvoewjElNQ,11350
+pdbtools/__init__.py,sha256=FN83ZHvtgK83OaOvhaKBJXqvn44ikqLt1pXloqS03O8,3320
+pdbtools/pdb_b.py,sha256=stTb1z6uzpUl564wfcU6SqR5f8eLGP5B-l5TuyKQBfs,5026
+pdbtools/pdb_chain.py,sha256=pA4k_Qc25eYEu7Cuq0T9uiKcPckpG-ZisOiKyE16Ako,4955
+pdbtools/pdb_chainbows.py,sha256=L91PjEINGsD5dioND5spVbQ31MzJRFRP8pwfa_mp9Ts,4486
+pdbtools/pdb_chainxseg.py,sha256=tVTNwSdCJ-k3B98UbEMhVXGTO6mjM5IImWfhVBBYfYE,3812
+pdbtools/pdb_chkensemble.py,sha256=w64kSWqWDxLnpCNu-HxZTQq1sNTKtD4xWfS7koyObMA,5282
+pdbtools/pdb_delchain.py,sha256=MFEHI2oRenKPhMZeRnoXLW9dETHN7GTdDR2Rw-mhnzI,5201
+pdbtools/pdb_delelem.py,sha256=9QBYgh7mIBf4Bvj2mVPe6Wr73QUcKz8JH9PcUxBoqJo,5258
+pdbtools/pdb_delhetatm.py,sha256=9R4NLqSvFOX9Na6_HVMhT5hy1rT_2Rj2w4_XrdW1IBY,3740
+pdbtools/pdb_delinsertion.py,sha256=hKTnjwfMPJ2QOPmwd1wMyScfPrGEEz-CcJk45ZB8wX4,2243
+pdbtools/pdb_delres.py,sha256=ZrCQbPkMHye3FpxyvMuc5FYj1KWh5xwrEoMW0OzHehU,7907
+pdbtools/pdb_delresname.py,sha256=aNOyr_LcYO4UakaPuJxC64s6pd1ZnZTx2wJ3up_Mvow,5209
+pdbtools/pdb_element.py,sha256=dnij6pHjzRCrVQ-CerlQBe3QqZ_FRpajV1l-7jYvDQY,5321
+pdbtools/pdb_fetch.py,sha256=QU6hRsyDeY9xZJMk5mv8_QaoMQVJCyIB4Pvp2Hs6tc4,4800
+pdbtools/pdb_fixinsert.py,sha256=vKK7ucVh8Ipx3kHpYN-KetQg7Rr0lC1O_E71FBHZ3jE,7092
+pdbtools/pdb_fromcif.py,sha256=OSMaRdUn6pQmiikVfX4jLztsE68jN_l167tQW1QtvkY,8197
+pdbtools/pdb_gap.py,sha256=SHQp7W_Lc4z7Pr1_xdjy67IYHYMboMgXF1JaQ5pdIn0,4326
+pdbtools/pdb_head.py,sha256=0GPzlYIQZIugMZLLXtHwPGvvY4ukNJIg3gNgSkjocDg,5082
+pdbtools/pdb_intersect.py,sha256=JFo8_7kqJGHSjZjEPsCjeTBj2L3pUxtUB3rH8leK7rg,3890
+pdbtools/pdb_keepcoord.py,sha256=Y-2B-4RLsuCdoGPd7AQ94SDm7Qt4LCjaxEsytEDSRrc,3444
+pdbtools/pdb_merge.py,sha256=ZGfiKOrakzzC_EI5I4IPujCVrmW5tnpDLBWFWxLe7o0,3096
+pdbtools/pdb_mkensemble.py,sha256=MMldN9gWgaLk5HaeKpiE4eNXRaGOsALNbr4NE4MPzCU,4145
+pdbtools/pdb_occ.py,sha256=_lpq2oHXx1h7hTXA276sGxgMlgDQ2eqGQuWtp9Kl4d8,4745
+pdbtools/pdb_reatom.py,sha256=0y9Dt70_3gwnLWmc1PJeWTU1lPF4IRxGGrVxo2JIUR4,6043
+pdbtools/pdb_reres.py,sha256=s0gAIIKz6zFTKxMn5OsgXrOsIfi7gFcLeFIpjRl3k-o,5770
+pdbtools/pdb_rplchain.py,sha256=0fE8wpb1X_aDX-RVhB9VbYcQSqDIqVLCWm_TcoUZB_s,5184
+pdbtools/pdb_rplresname.py,sha256=IR89pvG3kdAa1GrNYCaj1XU67AJRwL3Uy2zOkp5QEJ8,5106
+pdbtools/pdb_seg.py,sha256=SCKZzQKXJxF2W1yYo3-w9SsA3w1C0dFhYqRrN6G9a5U,4958
+pdbtools/pdb_segxchain.py,sha256=2ZakxyOsPxrY3KcwJ1bVKwtHGDWIbVOWSbxGjK2U_3Y,4407
+pdbtools/pdb_selaltloc.py,sha256=GLNgCXO7-TQ3yiclM9VGuzH7Cmv_4IA5rtkCN3ggdng,15351
+pdbtools/pdb_selatom.py,sha256=x60cAFLYU4JOgaQ-uRXvQtVt3W9vEWShMiGxbqkKXx8,5267
+pdbtools/pdb_selchain.py,sha256=EsEz4DNjNsWLPDSgpDdVpw2uEBLIuVowAfcRvrp4Y-k,5136
+pdbtools/pdb_selelem.py,sha256=jQ4zVfHincDyW1jbqJRR4H-gvkmgb9gqo3X3qlD5zMs,5298
+pdbtools/pdb_selhetatm.py,sha256=rTlNaD8lZQwfW0-51KdRsCBn0rnDNMXisAvq9t9EeRg,3711
+pdbtools/pdb_selmodel.py,sha256=s-HzuWrAlBP0qGJpboa5ccZECUQ1t95CqL2NH1D54PM,5538
+pdbtools/pdb_selres.py,sha256=2ru7kmerulQel2qNz3EhgevQ0v2dRe3m6NlDG08sP14,8753
+pdbtools/pdb_selresname.py,sha256=i2wo7EgXPHVy8rlbD-iB8ynw0umYFEop9YCUUQdCsSk,5281
+pdbtools/pdb_selseg.py,sha256=xFRfcVrqbWv_9HhLQbKvPOedhbmdU-s4GoVupAvxWzs,5089
+pdbtools/pdb_shiftres.py,sha256=LrZufworF1xF0u_uY0_QYjIfU7Uk7AftWJAwnN5BXL4,5079
+pdbtools/pdb_sort.py,sha256=szYyd5NhpVjfNSEO07LBuFtHHM3eZXRfZ-T7YNORs60,8280
+pdbtools/pdb_splitchain.py,sha256=TepAD4vlUD7kc3oqJQ49WOM7xr8hdvisP6BgZfkGbNc,3765
+pdbtools/pdb_splitmodel.py,sha256=oXUiZn_TY8q2jl5_KEVI1ydE7P3W5kp7X8cM7nQO-Co,3577
+pdbtools/pdb_splitseg.py,sha256=g5pQ9rye9q3cgY866ZwDaCNEAzevKOr_ePX84L0tdUw,3868
+pdbtools/pdb_tidy.py,sha256=fJWDyU5wdJvxwz3BTi88k75K1Zu2-qmsJW-EJ52xC2Q,8644
+pdbtools/pdb_tocif.py,sha256=8xS8eROua71uzxB8kR9WOKmnaJAdr11XKPVFwhLUZOY,6768
+pdbtools/pdb_tofasta.py,sha256=n9RxmiVcSo1sX-oWMly4-Xi4YwNviLCk0uuGQYt1gFE,6336
+pdbtools/pdb_uniqname.py,sha256=uucIbHShFdHl6nskcrALNf_jzHgFA8zCyx0dXtONRVM,3890
+pdbtools/pdb_validate.py,sha256=yTjlgexYoB52oLr3kFlSBqhPh-WeZWSAEuBPaORiCyY,6286
+pdbtools/pdb_wc.py,sha256=0aOGwNG66A4tUJANt-r1z_Pp3LoCOadHXGpmSoabNGU,8477
+pdb_tools-2.5.1.dist-info/METADATA,sha256=ay9s_BABr4O2KRIFNXQecjZL-nf0fMSvCSTYjA66hj4,6780
+pdb_tools-2.5.1.dist-info/WHEEL,sha256=qELbo2s1Yzl39ZmrAibXA2jjPLUYfnVhUNTlyF1rq0Y,92
+pdb_tools-2.5.1.dist-info/entry_points.txt,sha256=ZwR1wuBJ03mYzXiYYToZqtHlw1CV4OQxAUgJ2iR_AXk,1986
+pdb_tools-2.5.1.dist-info/top_level.txt,sha256=VJ80Sd0ldoM5Fb0EG_JRbs2GmslbFIKBL8Y0Rok8q-U,9
+pdb_tools-2.5.1.dist-info/RECORD,,

{pdb_tools-2.4.12.dist-info → pdb_tools-2.5.1.dist-info}/WHEEL

@@ -1,5 +1,5 @@
 Wheel-Version: 1.0
-Generator: bdist_wheel (0.37.1)
+Generator: setuptools (80.10.1)
 Root-Is-Purelib: true
 Tag: py3-none-any
 

{pdb_tools-2.4.12.dist-info → pdb_tools-2.5.1.dist-info}/entry_points.txt

@@ -33,6 +33,7 @@ pdb_selatom = pdbtools.pdb_selatom:main
 pdb_selchain = pdbtools.pdb_selchain:main
 pdb_selelem = pdbtools.pdb_selelem:main
 pdb_selhetatm = pdbtools.pdb_selhetatm:main
+pdb_selmodel = pdbtools.pdb_selmodel:main
 pdb_selres = pdbtools.pdb_selres:main
 pdb_selresname = pdbtools.pdb_selresname:main
 pdb_selseg = pdbtools.pdb_selseg:main
@@ -47,4 +48,3 @@ pdb_tofasta = pdbtools.pdb_tofasta:main
 pdb_uniqname = pdbtools.pdb_uniqname:main
 pdb_validate = pdbtools.pdb_validate:main
 pdb_wc = pdbtools.pdb_wc:main
-

{pdb_tools-2.4.12.dist-info → pdb_tools-2.5.1.dist-info}/top_level.txt

@@ -1,2 +1 @@
 pdbtools
-tests

pdbtools/pdb_selmodel.py

@@ -0,0 +1,194 @@
+#!/usr/bin/env python
+# -*- coding: utf-8 -*-
+#
+# Copyright 2022 João Pedro Rodrigues
+#
+# Licensed under the Apache License, Version 2.0 (the "License");
+# you may not use this file except in compliance with the License.
+# You may obtain a copy of the License at
+#
+#    http://www.apache.org/licenses/LICENSE-2.0
+#
+# Unless required by applicable law or agreed to in writing, software
+# distributed under the License is distributed on an "AS IS" BASIS,
+# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
+# See the License for the specific language governing permissions and
+# limitations under the License.
+
+"""
+Extracts one or more models from a PDB file.
+
+If the PDB file has no MODEL records, returns the entire file.
+
+Usage:
+    python pdb_selmodel.py -<model id> <pdb file>
+
+Example:
+    python pdb_selmodel.py -1 1GGR.pdb  # selects model 1
+    python pdb_selmodel.py -1,3 1GGR.pdb  # selects models 1 and 3
+
+This program is part of the `pdb-tools` suite of utilities and should not be
+distributed isolatedly. The `pdb-tools` were created to quickly manipulate PDB
+files using the terminal, and can be used sequentially, with one tool streaming
+data to another. They are based on old FORTRAN77 code that was taking too much
+effort to maintain and compile. RIP.
+"""
+
+import os
+import sys
+
+__author__ = "Joao Rodrigues"
+__email__ = "j.p.g.l.m.rodrigues@gmail.com"
+
+
+def check_input(args):
+    """Checks whether to read from stdin/file and validates user input/options.
+    """
+
+    # Defaults
+    option = ''
+    fh = sys.stdin  # file handle
+
+    if not len(args):
+        # Reading from pipe with default option
+        if sys.stdin.isatty():
+            sys.stderr.write(__doc__)
+            sys.exit(1)
+
+    elif len(args) == 1:
+        # One of two options: option & Pipe OR file & default option
+        if args[0].startswith('-'):
+            option = args[0][1:]
+            if sys.stdin.isatty():  # ensure the PDB data is streamed in
+                emsg = 'ERROR!! No data to process!\n'
+                sys.stderr.write(emsg)
+                sys.stderr.write(__doc__)
+                sys.exit(1)
+
+        else:
+            if not os.path.isfile(args[0]):
+                emsg = 'ERROR!! File not found or not readable: \'{}\'\n'
+                sys.stderr.write(emsg.format(args[0]))
+                sys.stderr.write(__doc__)
+                sys.exit(1)
+
+            fh = open(args[0], 'r')
+
+    elif len(args) == 2:
+        # Two options: option & File
+        if not args[0].startswith('-'):
+            emsg = 'ERROR! First argument is not an option: \'{}\'\n'
+            sys.stderr.write(emsg.format(args[0]))
+            sys.stderr.write(__doc__)
+            sys.exit(1)
+
+        if not os.path.isfile(args[1]):
+            emsg = 'ERROR!! File not found or not readable: \'{}\'\n'
+            sys.stderr.write(emsg.format(args[1]))
+            sys.stderr.write(__doc__)
+            sys.exit(1)
+
+        option = args[0][1:]
+        fh = open(args[1], 'r')
+
+    else:  # Whatever ...
+        sys.stderr.write(__doc__)
+        sys.exit(1)
+
+    # Validate option
+    option_set = set()
+    for opt in option.split(','):
+        opt = opt.strip()
+        if not opt:
+            continue
+        try:
+            opt = int(opt)
+        except ValueError:
+            emsg = 'ERROR!! Model identifier is invalid: \'{}\'\n'
+            sys.stderr.write(emsg.format(opt))
+            sys.stderr.write(__doc__)
+            sys.exit(1)
+        option_set.add(opt)
+
+    if not option_set:
+        emsg = 'ERROR!! You must provide at least one model identifier\n'
+        sys.stderr.write(emsg)
+        sys.stderr.write(__doc__)
+        sys.exit(1)
+
+    return (fh, option_set)
+
+
+def run(fhandle, model_set):
+    """
+    Filter the PDB file for specific model identifiers.
+
+    This function is a generator.
+
+    Parameters
+    ----------
+    fhandle : a line-by-line iterator of the original PDB file.
+
+    model_set : set, or list, or tuple
+        The group of models to kepp.
+        Example: (1, 3), keeps only atoms from models 1 and 3
+
+    Yields
+    ------
+    str (line-by-line)
+        The PDB lines for those matching the selected chains.
+    """
+    records = ('ATOM', 'HETATM', 'TER', 'ANISOU')
+    ignore_model = False
+    for line in fhandle:
+        if line.startswith('MODEL'):
+            model_id = int(line[10:14])
+            if model_id not in model_set:
+                ignore_model = True
+                continue
+
+        elif line.startswith('ENDMDL'):
+            if ignore_model:
+                ignore_model = False
+                continue
+
+        elif ignore_model and line.startswith(records):
+            continue
+        yield line
+
+
+select_model = run
+
+
+def main():
+    # Check Input
+    pdbfh, models = check_input(sys.argv[1:])
+
+    # Do the job
+    new_pdb = run(pdbfh, models)
+
+    try:
+        _buffer = []
+        _buffer_size = 5000  # write N lines at a time
+        for lineno, line in enumerate(new_pdb):
+            if not (lineno % _buffer_size):
+                sys.stdout.write(''.join(_buffer))
+                _buffer = []
+            _buffer.append(line)
+
+        sys.stdout.write(''.join(_buffer))
+        sys.stdout.flush()
+    except IOError:
+        # This is here to catch Broken Pipes
+        # for example to use 'head' or 'tail' without
+        # the error message showing up
+        pass
+
+    # last line of the script
+    # We can close it even if it is sys.stdin
+    pdbfh.close()
+    sys.exit(0)
+
+
+if __name__ == '__main__':
+    main()

pdbtools/pdb_tidy.py

@@ -44,6 +44,8 @@ effort to maintain and compile. RIP.
 
 import os
 import sys
+import re
+import textwrap
 
 __author__ = "Joao Rodrigues"
 __email__ = "j.p.g.l.m.rodrigues@gmail.com"
@@ -108,7 +110,7 @@ def check_input(args):
 
 def run(fhandle, strict=False):
     """
-    Add TER/END statements and pads all lines to 80 characters.
+    Add TER/END statements and truncates/pads all lines to 80 characters.
 
     This function is a generator.
 
@@ -161,8 +163,14 @@ def run(fhandle, strict=False):
         if line.startswith(ignored):  # to avoid matching END _and_ ENDMDL
             continue
 
-        # Check line length
-        line = "{:<80}\n".format(line)
+        # Check line length, wrapping and padding as necessary
+        # preserve the line prefix for wrapping
+        prefix = re.match(r"\S+\s*", line).group(0)
+        content = line[len(prefix):].lstrip()
+
+        line = "".join(
+            f"{prefix}{part:<{80 - len(prefix)}}\n"
+            for part in textwrap.wrap(content, width=80 - len(prefix)))
 
         yield line
 
@@ -214,9 +222,9 @@ def run(fhandle, strict=False):
             if atom_section:
                 atom_section = False
                 yield make_TER(prev_line)
-                if in_model:
-                    yield "{:<80}\n".format("ENDMDL")
-                    in_model = False
+            if in_model:
+                yield "{:<80}\n".format("ENDMDL")
+                in_model = False
 
             if line.startswith('MODEL'):
                 line = "MODEL " + "    " + str(num_models).rjust(4)
@@ -240,9 +248,9 @@ def run(fhandle, strict=False):
             # Add last TER statement
             atom_section = False
             yield make_TER(prev_line)
-            if in_model:
-                yield "{:<80}\n".format("ENDMDL")
-                in_model = False
+        if in_model:
+            yield "{:<80}\n".format("ENDMDL")
+            in_model = False
 
     # Add END statement
     yield "{:<80}\n".format("END")

pdb_tools-2.4.12.dist-info/RECORD

@@ -1,103 +0,0 @@
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-pdbtools/pdb_b.py,sha256=stTb1z6uzpUl564wfcU6SqR5f8eLGP5B-l5TuyKQBfs,5026
-pdbtools/pdb_chain.py,sha256=pA4k_Qc25eYEu7Cuq0T9uiKcPckpG-ZisOiKyE16Ako,4955
-pdbtools/pdb_chainbows.py,sha256=L91PjEINGsD5dioND5spVbQ31MzJRFRP8pwfa_mp9Ts,4486
-pdbtools/pdb_chainxseg.py,sha256=tVTNwSdCJ-k3B98UbEMhVXGTO6mjM5IImWfhVBBYfYE,3812
-pdbtools/pdb_chkensemble.py,sha256=w64kSWqWDxLnpCNu-HxZTQq1sNTKtD4xWfS7koyObMA,5282
-pdbtools/pdb_delchain.py,sha256=MFEHI2oRenKPhMZeRnoXLW9dETHN7GTdDR2Rw-mhnzI,5201
-pdbtools/pdb_delelem.py,sha256=9QBYgh7mIBf4Bvj2mVPe6Wr73QUcKz8JH9PcUxBoqJo,5258
-pdbtools/pdb_delhetatm.py,sha256=9R4NLqSvFOX9Na6_HVMhT5hy1rT_2Rj2w4_XrdW1IBY,3740
-pdbtools/pdb_delinsertion.py,sha256=hKTnjwfMPJ2QOPmwd1wMyScfPrGEEz-CcJk45ZB8wX4,2243
-pdbtools/pdb_delres.py,sha256=ZrCQbPkMHye3FpxyvMuc5FYj1KWh5xwrEoMW0OzHehU,7907
-pdbtools/pdb_delresname.py,sha256=aNOyr_LcYO4UakaPuJxC64s6pd1ZnZTx2wJ3up_Mvow,5209
-pdbtools/pdb_element.py,sha256=dnij6pHjzRCrVQ-CerlQBe3QqZ_FRpajV1l-7jYvDQY,5321
-pdbtools/pdb_fetch.py,sha256=QU6hRsyDeY9xZJMk5mv8_QaoMQVJCyIB4Pvp2Hs6tc4,4800
-pdbtools/pdb_fixinsert.py,sha256=vKK7ucVh8Ipx3kHpYN-KetQg7Rr0lC1O_E71FBHZ3jE,7092
-pdbtools/pdb_fromcif.py,sha256=OSMaRdUn6pQmiikVfX4jLztsE68jN_l167tQW1QtvkY,8197
-pdbtools/pdb_gap.py,sha256=SHQp7W_Lc4z7Pr1_xdjy67IYHYMboMgXF1JaQ5pdIn0,4326
-pdbtools/pdb_head.py,sha256=0GPzlYIQZIugMZLLXtHwPGvvY4ukNJIg3gNgSkjocDg,5082
-pdbtools/pdb_intersect.py,sha256=JFo8_7kqJGHSjZjEPsCjeTBj2L3pUxtUB3rH8leK7rg,3890
-pdbtools/pdb_keepcoord.py,sha256=Y-2B-4RLsuCdoGPd7AQ94SDm7Qt4LCjaxEsytEDSRrc,3444
-pdbtools/pdb_merge.py,sha256=ZGfiKOrakzzC_EI5I4IPujCVrmW5tnpDLBWFWxLe7o0,3096
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tests/__init__.py

@@ -1,38 +0,0 @@
-#!/usr/bin/env python
-# -*- coding: utf-8 -*-
-#
-# Copyright 2018 João Pedro Rodrigues
-#
-# Licensed under the Apache License, Version 2.0 (the "License");
-# you may not use this file except in compliance with the License.
-# You may obtain a copy of the License at
-#
-#    http://www.apache.org/licenses/LICENSE-2.0
-#
-# Unless required by applicable law or agreed to in writing, software
-# distributed under the License is distributed on an "AS IS" BASIS,
-# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
-# See the License for the specific language governing permissions and
-# limitations under the License.
-
-"""
-Unit Tests for all pdb-tools scripts
-"""
-
-import os
-import sys
-import unittest
-
-from .config import test_dir
-
-
-def test_all():
-    mpath = os.path.abspath(os.path.join(test_dir, '..'))
-    sys.path.insert(0, mpath)  # so we load dev files before  any installation
-
-    loader = unittest.defaultTestLoader
-
-    tpath = os.path.join(mpath, 'tests')
-    suite = loader.discover(tpath)
-
-    return suite

tests/config.py

@@ -1,25 +0,0 @@
-#!/usr/bin/env python
-# -*- coding: utf-8 -*-
-#
-# Copyright 2018 João Pedro Rodrigues
-#
-# Licensed under the Apache License, Version 2.0 (the "License");
-# you may not use this file except in compliance with the License.
-# You may obtain a copy of the License at
-#
-#    http://www.apache.org/licenses/LICENSE-2.0
-#
-# Unless required by applicable law or agreed to in writing, software
-# distributed under the License is distributed on an "AS IS" BASIS,
-# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
-# See the License for the specific language governing permissions and
-# limitations under the License.
-
-"""
-Configuration settings for the Tests.
-"""
-
-import os
-
-test_dir = os.path.dirname(os.path.abspath(__file__))
-data_dir = os.path.join(test_dir, 'data')