Change examples and update DOS files, etc. (deepmodeling#6291)

* begin changing the output file names of out_mat_hs

* update output vxc an output tk

* Fix example 006_NO_GO_OH in 02_NAO_Gamma

* fix a bug

* fix 17_NO_KP_OH example in 03_NAO_multik

* partly update the 19_NO_KP_OH_nscf exxample and related codes

* partly update 20_NO_KP_OHS_S4

* fix the example 20_NO_KP_OHS_S4

* print out the information for H(R), S(R), H(k) and S(k)

* update 08_EXX examples

* update output filenames related to dH, dS, rR

* update documents

* add ctrl_output_lcao.h and ctrl_output_lcao.cpp files

* update ctrl_output_lcao function

* add more function in ctrl_output_lcao

* update ctrl_output_lcao

* update the output_mat_sparse function

* update p_hamilt class without the Device parameter

* add back functions in ctrl_output_lcao

* add back berry phase in ctrl_output_lcao

* add back wannier90

* add back rdmft

* update lcao_after_scf, this is before using ctrl_outut_lcao in lcao_after_scf

* update

* the functions turn normal, reconstruction finished

* merge

* fix bug related to deepks and exc

* update input-main.md

* fix exx codes

* update description for printing out H and S matrices

* change get_S to get_s

* update get_s document

* update the output of dos

* output dos when nspin = 2

* update the dos documents

* change out_dm to out_dmk and out_dm1 to out_dmr

* update out_dmk and out_dmr examples

* update the DOS name, update the output frequency of DOS for LCAO, not for PW yet

* update dos description

* add example relax_output, delete useless out_dm parameter in 11_PW_GPU tests

* update DOS related testing codes

* update 031 032 103 104

* update reference data for DOS

* fix a bug in example 05_NO_KP_DJ_OC2

* fix bug

* update SDFT DOS

* update dos ref

* update DOS examples

* update deepks examples

* add index for examples

* add KPT

Author: mohanchen

examples/bravais_lattice/README renamed to examples/01_bravais_lattice/README

@@ -1,9 +1,3 @@
-/*******************************************************************************/
-/
-/ These are the examples of ABACUS program.
-/
-/*******************************************************************************/
-
 These examples show how to use standard Bravias lattice type to set the cell.
    - set 'latname' to one of the below types:
          - `sc`: simple cubie.