Updates to user manual, slurm scripts, model reading, and adjoint kernels' computation

[aakash10gupta]

This pull request contains the following updates -

1. User manual - removes obsolete parameters' descriptions
2. Slurm scripts - updates parameter reading from Par_file, and the 'if ' statements
3. Model reading -
   • initializes anisotropy variables in model_default.f90
   • updates array usage in reading anisotropic tomographic models
4. Adjoint kernels' computation -
   • consistent use of the 'type' of coefficients in the equations with better readability
   • correction for equation of 'eta' for transverse isotropic models

[buildbot-princeton]

The files changed require a buildbot test. Buildbot has started.

[codecov-commenter]

Codecov Report

Base: 45.56% // Head: 45.59% // Increases project coverage by +0.03% :tada:

Coverage data is based on head (6fd6cee) compared to base (1a352a6). Patch coverage: 54.54% of modified lines in pull request are covered.

Additional details and impacted files

```diff @@ Coverage Diff @@ ## devel #1578 +/- ## ========================================== + Coverage 45.56% 45.59% +0.03% ========================================== Files 247 249 +2 Lines 55268 55527 +259 ========================================== + Hits 25182 25317 +135 - Misses 30086 30210 +124 ``` | [Impacted Files](https://codecov.io/gh/SPECFEM/specfem3d/pull/1578?src=pr&el=tree&utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=SPECFEM) | Coverage Δ | | |---|---|---| | [src/generate\_databases/model\_tomography.f90](https://codecov.io/gh/SPECFEM/specfem3d/pull/1578/diff?src=pr&el=tree&utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=SPECFEM#diff-c3JjL2dlbmVyYXRlX2RhdGFiYXNlcy9tb2RlbF90b21vZ3JhcGh5LmY5MA==) | `63.13% <0.00%> (+0.37%)` | :arrow_up: | | [src/specfem3D/save\_adjoint\_kernels.f90](https://codecov.io/gh/SPECFEM/specfem3d/pull/1578/diff?src=pr&el=tree&utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=SPECFEM#diff-c3JjL3NwZWNmZW0zRC9zYXZlX2Fkam9pbnRfa2VybmVscy5mOTA=) | `22.76% <25.00%> (ø)` | | | [src/generate\_databases/model\_default.f90](https://codecov.io/gh/SPECFEM/specfem3d/pull/1578/diff?src=pr&el=tree&utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=SPECFEM#diff-c3JjL2dlbmVyYXRlX2RhdGFiYXNlcy9tb2RlbF9kZWZhdWx0LmY5MA==) | `94.25% <100.00%> (+1.82%)` | :arrow_up: | | [src/decompose\_mesh/partition\_scotch.F90](https://codecov.io/gh/SPECFEM/specfem3d/pull/1578/diff?src=pr&el=tree&utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=SPECFEM#diff-c3JjL2RlY29tcG9zZV9tZXNoL3BhcnRpdGlvbl9zY290Y2guRjkw) | `13.47% <0.00%> (-0.20%)` | :arrow_down: | | [src/specfem3D/convert\_time.f90](https://codecov.io/gh/SPECFEM/specfem3d/pull/1578/diff?src=pr&el=tree&utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=SPECFEM#diff-c3JjL3NwZWNmZW0zRC9jb252ZXJ0X3RpbWUuZjkw) | `66.29% <0.00%> (ø)` | | | [src/shared/serial.f90](https://codecov.io/gh/SPECFEM/specfem3d/pull/1578/diff?src=pr&el=tree&utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=SPECFEM#diff-c3JjL3NoYXJlZC9zZXJpYWwuZjkw) | `47.08% <0.00%> (ø)` | | | [src/generate\_databases/model\_sep\_nompi.f90](https://codecov.io/gh/SPECFEM/specfem3d/pull/1578/diff?src=pr&el=tree&utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=SPECFEM#diff-c3JjL2dlbmVyYXRlX2RhdGFiYXNlcy9tb2RlbF9zZXBfbm9tcGkuZjkw) | `0.00% <0.00%> (ø)` | | | [src/decompose\_mesh/decompose\_mesh.F90](https://codecov.io/gh/SPECFEM/specfem3d/pull/1578/diff?src=pr&el=tree&utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=SPECFEM#diff-c3JjL2RlY29tcG9zZV9tZXNoL2RlY29tcG9zZV9tZXNoLkY5MA==) | `72.06% <0.00%> (+0.55%)` | :arrow_up: | | [src/decompose\_mesh/write\_mesh\_databases.F90](https://codecov.io/gh/SPECFEM/specfem3d/pull/1578/diff?src=pr&el=tree&utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=SPECFEM#diff-c3JjL2RlY29tcG9zZV9tZXNoL3dyaXRlX21lc2hfZGF0YWJhc2VzLkY5MA==) | `87.69% <0.00%> (+3.07%)` | :arrow_up: | Help us with your feedback. Take ten seconds to tell us [how you rate us](https://about.codecov.io/nps?utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=SPECFEM). Have a feature suggestion? [Share it here.](https://app.codecov.io/gh/feedback/?utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=SPECFEM)

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[buildbot-princeton]

Your changes passed the buildbot test. See build 940.

[danielpeter]

accept

On 3 Dec 2022, at 6:42 AM, buildbot-princeton @.***> wrote:

Your changes passed the buildbot test. See build 940 https://urldefense.com/v3/__http://specfem3d-buildbot.princeton.edu/builders/specfem3d_builder/builds/940__;!!Nmw4Hv0!1UTqBQKgeV_L3rRRZR-TtRwwnHXEchteyZKt-TMUuHAefl2I7lSlEBs_5gEeNQRGGhFN2BK3jUF-MhnSJ6y8lBsbCfMJTNc$.

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