Assertion failed

[TorHou]

Very nice project. I saw a working version of this program and it seems very promising. However,
I get errors when I try to compile gfaestus with RUST_BACKTRACE=full cargo build --release

error[E0277]:` `[gff::Gff3Column; 3]` is not an iterator
   --> src/gui.rs:449:18
    |
449 |             list.set_default_columns(
    |                  ^^^^^^^^^^^^^^^^^^^ borrow the array with `&` or call `.iter()` on it to iterate over it
    |
    = help: the trait `std::iter::Iterator` is not implemented for `[gff::Gff3Column; 3]`
    = note: arrays are not iterators, but slices like the following are: `&[1, 2, 3]`
    = note: required because of the requirements on the impl of `IntoIterator` for `[gff::Gff3Column; 3]`

error[E0277]: `[gff::Gff3Column; 4]` is not an iterator
   --> src/gui.rs:451:17
    |
451 |                 [Gff::SeqId, Gff::Start, Gff::End, Gff::Strand],
    |                 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
    |                 |
    |                 expected an implementor of trait `IntoIterator`
    |                 help: consider borrowing here: `&[Gff::SeqId, Gff::Start, Gff::End, Gff::Strand]`
    |
    = note: the trait bound `[gff::Gff3Column; 4]: IntoIterator` is not satisfied
    = note: required because of the requirements on the impl of `IntoIterator` for `[gff::Gff3Column; 4]`

error[E0277]: `[_; 0]` is not an iterator
   --> src/gui.rs:466:18
    |
466 |             list.set_default_columns([], [Bed::Chr, Bed::Start, Bed::End]);
    |                  ^^^^^^^^^^^^^^^^^^^ borrow the array with `&` or call `.iter()` on it to iterate over it
    |
    = help: the trait `std::iter::Iterator` is not implemented for `[_; 0]`
    = note: arrays are not iterators, but slices like the following are: `&[1, 2, 3]`
    = note: required because of the requirements on the impl of `IntoIterator` for `[_; 0]`

error[E0277]: `[bed::BedColumn; 3]` is not an iterator
   --> src/gui.rs:466:42
    |
466 |             list.set_default_columns([], [Bed::Chr, Bed::Start, Bed::End]);
    |                                          ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
    |                                          |
    |                                          expected an implementor of trait `IntoIterator`
    |                                          help: consider borrowing here: `&[Bed::Chr, Bed::Start, Bed::End]`
    |
    = note: the trait bound `[bed::BedColumn; 3]: IntoIterator` is not satisfied
    = note: required because of the requirements on the impl of `IntoIterator` for `[bed::BedColumn; 3]`

I do not know any Rust... so I don't know how to properly fix it. When I outcomment the offending lines the code compiles though

[subwaystation]

Which version of rust are you using @TorHou ?

[TorHou]

Ah good point. I'm using the version in the apt repository for Ubuntu 18.04. I will try it with the 20.04 standard version.

[TorHou]

I get the same issue. The rust version is 1.51.0

[subwaystation]

If possible, could you please try https://rustup.rs/ and rust version 1.55.0? Thanks!

[TorHou]

Allright with version 1.56.0 it compiles. However, now I get the following problem when executing

gfaestus: vendor/src/vk_mem_alloc.h:11791: void VmaDeviceMemoryBlock::Destroy(VmaAllocator): Assertion `m_pMetadata->IsEmpty() && "Some allocations were not freed before destruction of this memory block!"' failed.

[AndreaGuarracino]

Hi @TorHou, I had the same problem. Take a look at #4 (comment), maybe it could work also for you.

[TorHou]

Hi @AndreaGuarracino
I have tried it:

 export VK_ICD_FILENAMES=/usr/share/vulkan/icd.d/nvidia_icd.json; export RUST_BACKTRACE=1; ./target/release/gfaestus ~/Projects/MHC/simonstools/mhcs.fa.a2fb268.4030258.792e66f.smooth.1.gfa ~/Projects/MHC/simonstools/mhcs.fa.a2fb268.4030258.792e66f.smooth.og.tsv

but the problem persists

thread 'main' panicked at 'called `Result::unwrap()` on an `Err` value: -1000011001', src/main.rs:331:10
stack backtrace:
   0: rust_begin_unwind
             at /rustc/09c42c45858d5f3aedfa670698275303a3d19afa/library/std/src/panicking.rs:517:5
   1: core::panicking::panic_fmt
             at /rustc/09c42c45858d5f3aedfa670698275303a3d19afa/library/core/src/panicking.rs:101:14
   2: core::result::unwrap_failed
             at /rustc/09c42c45858d5f3aedfa670698275303a3d19afa/library/core/src/result.rs:1617:5
   3: gfaestus::main
note: Some details are omitted, run with `RUST_BACKTRACE=full` for a verbose backtrace.
gfaestus: vendor/src/vk_mem_alloc.h:11791: void VmaDeviceMemoryBlock::Destroy(VmaAllocator): Assertion `m_pMetadata->IsEmpty() && "Some allocations were not freed before destruction of this memory block!"' failed.
Aborted (core dumped)

[chfi]

@TorHou I merged the dev branch with master today, which includes a number of compatibility fixes, see if it works now.

If that still doesn't work, please run it with RUST_BACKTRACE=full, give gfaestus the --debug flag, and send me the log file that it saves, and the output of running vulkaninfo, thanks

[TorHou]

Hi @chfi

Perfect, it works for me now. It's really neat. I am currently testing the annotation feature.