shell-init: error retrieving current directory: getcwd: cannot access parent directories: No such file or directory
chdir: error retrieving current directory: getcwd: cannot access parent directories: No such file or directory
Traceback (most recent call last):
  File "/net/cci-filer2/raid1/xp/phenix/phenix-1.21rc1-4953/build/../modules/phenix/phenix/command_line/real_space_refine.py", line 5, in <module>
    from phenix.programs import real_space_refine
  File "/net/cci-filer2/raid1/xp/phenix/phenix-1.21rc1-4953/modules/phenix/phenix/programs/real_space_refine.py", line 3, in <module>
    import mmtbx.maps.map_model_cc
  File "/net/cci-filer2/raid1/xp/phenix/phenix-1.21rc1-4953/modules/cctbx_project/mmtbx/maps/__init__.py", line 16, in <module>
    from iotbx import extract_xtal_data
  File "/net/cci-filer2/raid1/xp/phenix/phenix-1.21rc1-4953/modules/cctbx_project/iotbx/extract_xtal_data.py", line 6, in <module>
    from iotbx import reflection_file_utils
  File "/net/cci-filer2/raid1/xp/phenix/phenix-1.21rc1-4953/modules/cctbx_project/iotbx/reflection_file_utils.py", line 2, in <module>
    from iotbx import reflection_file_reader
  File "/net/cci-filer2/raid1/xp/phenix/phenix-1.21rc1-4953/modules/cctbx_project/iotbx/reflection_file_reader.py", line 63, in <module>
    from iotbx.shelx import crystal_symmetry_from_ins
  File "/net/cci-filer2/raid1/xp/phenix/phenix-1.21rc1-4953/modules/cctbx_project/iotbx/shelx/crystal_symmetry_from_ins.py", line 2, in <module>
    from iotbx import shelx, builders
  File "/net/cci-filer2/raid1/xp/phenix/phenix-1.21rc1-4953/modules/cctbx_project/iotbx/builders.py", line 14, in <module>
    from smtbx.refinement.restraints import adp_restraints as smtbx_adp_restraints
  File "/net/cci-filer2/raid1/xp/phenix/phenix-1.21rc1-4953/modules/cctbx_project/smtbx/refinement/__init__.py", line 3, in <module>
    from smtbx.refinement import constraints, least_squares, restraints
  File "/net/cci-filer2/raid1/xp/phenix/phenix-1.21rc1-4953/modules/cctbx_project/smtbx/refinement/least_squares.py", line 12, in <module>
    from scitbx.lstbx import normal_eqns
  File "/net/cci-filer2/raid1/xp/phenix/phenix-1.21rc1-4953/modules/cctbx_project/scitbx/lstbx/normal_eqns.py", line 85, in <module>
    if libtbx.env.has_module('fast_linalg'):
  File "/net/cci-filer2/raid1/xp/phenix/phenix-1.21rc1-4953/modules/cctbx_project/libtbx/env_config.py", line 673, in has_module
    result = self.check_local_env('_has_module', name)
  File "/net/cci-filer2/raid1/xp/phenix/phenix-1.21rc1-4953/modules/cctbx_project/libtbx/env_config.py", line 553, in check_local_env
    local_env = get_local_env()
  File "/net/cci-filer2/raid1/xp/phenix/phenix-1.21rc1-4953/modules/cctbx_project/libtbx/env_config.py", line 3221, in get_local_env
    build_dir = os.getcwd()
OSError: [Errno 2] No such file or directory