[System] You are an expert software debugging assistant. Help debug issues by analyzing problems systematically and providing clear, step-by-step reasoning.

[User] I'm having an issue with the mesonbuild/meson codebase. Here's the problem: Expose `Environment::get_build_command()` to meson.build Hi, As part of the build generation I would like to generate tests / scripts that in invoke meson. One example is generating a script that runs `DESTDIR=/sometemp meson install` and then runs tests against that temporary installation. I can't just use `find_program('meson')` because meson may not be on `PATH` or the meson on `PATH` isn't the same as used in a build directory. I obviously can just invoke `ninja install ` in such scripts / tests, but that will not work in case a different backend is used. Hence the desire to expose `get_build_command()`. Would a patch adding that feature have a decent chance of getting accepted? A second, less crucial, use-case for this is that I would like to generate a script that uses meson introspect + knowledge of the source-tree to compares - and optionally resyncs - the list of tests existing in the source tree and the tests that the corresponding meson.build knows about. `get_build_command()` effectively already is exposed via `MESONINTROSPECT` (including inside `run_command` and `add_postconf_script`, which doesn't seem to be documented). Exposing just the meson invocation as an array to meson.build seems a lot cleaner however than needing to do shell-splitting inside commands. Regards, Andres Can you help me debug this systematically and explain your reasoning?


[System] You are an expert software debugging assistant. Help debug issues by analyzing problems systematically and providing clear, step-by-step reasoning.

[User] I'm having an issue with the docker/compose codebase. Here's the problem: Empty COMPOSE_PROJECT_NAME treated differently in 1.6.0rc2 In docker-compose 1.5.x an empty env variable for the project name is okay, it uses the default of the directory name. In 1.6 behavior has changed and this is now an error. I prefer the 1.5 behavior but if this is intentional seems like it's good for a release note. ``` $ env COMPOSE_PROJECT_NAME= docker-compose up -d Creating _npmlazy_1 ERROR: Invalid container name (_npmlazy_1), only [a-zA-Z0-9][a-zA-Z0-9_.-] are allowed ``` ``` $ docker-compose --version docker-compose version 1.6.0rc2, build 695c692 $ docker info Containers: 81 Images: 1904 Server Version: 1.9.1 Storage Driver: aufs Root Dir: /mnt/sda1/var/lib/docker/aufs Backing Filesystem: extfs Dirs: 2066 Dirperm1 Supported: true Execution Driver: native-0.2 Logging Driver: json-file Kernel Version: 4.1.12-boot2docker Operating System: Boot2Docker 1.9.0 (TCL 6.4.1); HEAD : 16e4a2a - Thu Dec 10 06:53:38 UTC 2015 CPUs: 4 Total Memory: 4.719 GiB Name: dev ID: VHZ6:63LX:AV4M:RCLR:562Q:EXOS:S5SL:5REP:AOET:6ZZE:YZUU:FQMV Debug mode (server): true File Descriptors: 177 Goroutines: 323 System Time: 2016-01-28T18:24:24.322889587Z EventsListeners: 1 Init SHA1: Init Path: /usr/local/bin/docker Docker Root Dir: /mnt/sda1/var/lib/docker Labels: ``` Can you help me debug this systematically and explain your reasoning?


[System] You are an expert software debugging assistant. Help debug issues by analyzing problems systematically and providing clear, step-by-step reasoning.

[User] I'm having an issue with the Qiskit/qiskit codebase. Here's the problem: gatefacecolor key has no effect on circuit diagrams ### Information - **Qiskit Terra version**: 0.9.0 - **Python version**: 3.7.4 - **Operating system**: Ubuntu 18.04.3 ### What is the current behavior? When plotting circuit diagrams, the `gatefacecolor` key has no effect. ### Steps to reproduce the problem ```python from qiskit import QuantumRegister, QuantumCircuit, ClassicalRegister qr = QuantumRegister(3) cr = ClassicalRegister(1) qc1 = QuantumCircuit(qr) qc1.x(qr[1]) qc1.h(range(3)) qc1.cx(qr[1], qr[2]) qc1.cx(qr[0], qr[1]) style = {'gatefacecolor': '#hhhhhh'} qc1.draw(output='mpl', style=style).show() ``` Produces this image: ![image](https://user-images.githubusercontent.com/14994219/65039957-454d9e00-d94b-11e9-8945-b2efd43b3f70.png) The same image is produced using any hex colour code or by removing the gatefacecolor key. ### What is the expected behavior? The gate faces should be white in this example. ### Suggested solutions A suggested solution was to use `style=False`, which overrides the default styling and produces a black and white diagram. However, this would not allow the use of other desired style keys such as `'usepiformat': 'true'`. Can you help me debug this systematically and explain your reasoning?


[System] You are an expert software debugging assistant. Help debug issues by analyzing problems systematically and providing clear, step-by-step reasoning.

[User] I'm having an issue with the Qiskit/qiskit codebase. Here's the problem: Update local Python simulators to use Qobj internally <!-- ⚠ If you do not respect this template, your issue will be closed --> <!-- ⚠ Make sure to browse the opened and closed issues to confirm this idea does not exist. --> ### What is the expected enhancement? After #655, the local Python simulators accept a `Qobj` instance (with the new schema) during `.run()`, but internally they still use the old schema (for example, in `.run_circuit()`). Ideally they should also make use of the new schema and the instances directly instead of performing that conversion. Can you help me debug this systematically and explain your reasoning?


[System] You are an expert software debugging assistant. Help debug issues by analyzing problems systematically and providing clear, step-by-step reasoning.

[User] I'm having an issue with the conda/conda codebase. Here's the problem: Deprecate 'conda env attach' and 'conda env upload' These two commands are outside the scope and spirit of conda. The first requires knowledge of a "notebook," which is not one of conda's fundamental units of work. The second requires knowledge of the Anaconda API, which is the purview of anaconda-client, not conda. Deprecation warnings will be given in conda 4.4, with the command scheduled for removal in conda 4.5. Deprecate 'conda env attach' and 'conda env upload' These two commands are outside the scope and spirit of conda. The first requires knowledge of a "notebook," which is not one of conda's fundamental units of work. The second requires knowledge of the Anaconda API, which is the purview of anaconda-client, not conda. Deprecation warnings will be given in conda 4.4, with the command scheduled for removal in conda 4.5. Can you help me debug this systematically and explain your reasoning?


[System] You are an expert software debugging assistant. Help debug issues by analyzing problems systematically and providing clear, step-by-step reasoning.

[User] I'm having an issue with the apache/airflow codebase. Here's the problem: Migrate MySQL example DAGs to new design There is a new design of system tests that was introduced by the [AIP-47](https://cwiki.apache.org/confluence/display/AIRFLOW/AIP-47+New+design+of+Airflow+System+Tests). All current example dags need to be migrated and converted into system tests, so they can be run in the CI process automatically before releases. This is an aggregated issue for all example DAGs related to `MySQL` provider. It is created to track progress of their migration. List of paths to example DAGs: - [x] airflow/providers/mysql/example_dags/example_mysql.py Can you help me debug this systematically and explain your reasoning?


[System] You are an expert software debugging assistant. Help debug issues by analyzing problems systematically and providing clear, step-by-step reasoning.

[User] I'm having an issue with the mesonbuild/meson codebase. Here's the problem: Empty classpath in java. I'm trying to generate java project with meson. The `meson.build` is: <pre> project('Calculator', 'java') src = files('calculator/Tokens.java', 'calculator/Tokenizer.java', 'calculator/Calculator.java') jar = jar(meson.project_name(), src, main_class : 'calculator/Calculator') test('test', jar) </pre> The meson generates ninja targets with empty -cp options. <pre> # Build rules for targets build Calculator@jar/calculator/Tokens.class: java_COMPILER ../calculator/Tokens.java ARGS = -g -d Calculator@jar -s Calculator@jar -cp '' -sourcepath ../:.: </pre> And I get a bunch of 'cannot find symbol' errors. I'm noob in java, but I believe the classpath should be `Calculator@jar`. When I set it manually in build.ninja all compiles fine. Can you help me debug this systematically and explain your reasoning?


[System] You are an expert software debugging assistant. Help debug issues by analyzing problems systematically and providing clear, step-by-step reasoning.

[User] I'm having an issue with the Qiskit/qiskit codebase. Here's the problem: XY gate ### What is the expected enhancement? It would be useful if the `XY` gate could be added to the existing circuit library https://qiskit.org/documentation/apidoc/circuit_library.html The use case is for a basis gate for the qiskit transpiler. Can you help me debug this systematically and explain your reasoning?


[System] You are an expert software debugging assistant. Help debug issues by analyzing problems systematically and providing clear, step-by-step reasoning.

[User] I'm having an issue with the DataDog/integrations-core codebase. Here's the problem: Bug in network check On this line: https://github.com/DataDog/integrations-core/blob/master/network/check.py#L438 This should be `self.log` rather than `self.logger`. As it is, this raises ``` AttributeError: 'Network' object has no attribute 'logger' ``` Can you help me debug this systematically and explain your reasoning?


[System] You are an expert software debugging assistant. Help debug issues by analyzing problems systematically and providing clear, step-by-step reasoning.

[User] I'm having an issue with the mesonbuild/meson codebase. Here's the problem: How to get meson to not add the -pipe option to my cpp compilation steps I have declared my project settings as such. `project('MyProject', 'cpp', 'c', default_options: ['buildtype=plain', 'b_staticpic=false', 'b_asneeded=false', 'b_lundef=false']` The project requires cross-compilation and neither my c _args or my cpp_args that come under the properties section of my crossfile include the '-pipe' option. However, the build.ninja that meson generates for my build directories shows that the '-pipe' has been added as a compiler argument in all my c/cpp compilation steps. Not sure if I missed it, but I'm unable to find a way to not enable meson to do this from the documentation. Is there a default option that I can set to not allow meson to insert compilation arguments other than the ones listed in my crossfile? System parameters: OS: Debian stretch Python version: 3.5.3 Meson version: 0.56.0 Ninja version; 1.7.2 Can you help me debug this systematically and explain your reasoning?


[System] You are an expert software debugging assistant. Help debug issues by analyzing problems systematically and providing clear, step-by-step reasoning.

[User] I'm having an issue with the Lightning-AI/lightning codebase. Here's the problem: Add a way to operate on all outputs from training_step I realized the ddp2 implementation i put together doesn't allow the user to operate on the ouputs of all DP processes. For instance, you calculate some logits on each process and current ddp2 forces the loss to be calculated in each process individually. However, if you wanted to say normalize across all examples in the batch you'd need to somehow share the output of each process. Currently: ```python total_loss = [] for process: # training step out = model(x) loss = loss(out) total_loss.append(loss) loss = total_loss.mean() ``` Proposed: ```python outs = [] for process: # training step out = model(x) outs.append(out) # allow training_end to (softmax for instance) using ALL outputs loss = model.training_end(outs) loss.backward() ``` The implication is adding an optional: ```python def training_end(...): ``` To model which when defines gives you all the outputs of training_step. If you don't need anything advanced like this, you return a loss from training_step and don't implement training_end. If you need more advanced control, you implement ```training_end```. @tullie @neggert Any thoughts on this? Can you help me debug this systematically and explain your reasoning?


[System] You are an expert software debugging assistant. Help debug issues by analyzing problems systematically and providing clear, step-by-step reasoning.

[User] I'm having an issue with the Qiskit/qiskit codebase. Here's the problem: cmd_def parameter string is incorrectly reported as unsafe <!-- ⚠ If you do not respect this template, your issue will be closed --> <!-- ⚠ Make sure to browse the opened and closed issues --> ### Information - **Qiskit Terra version**: - **Python version**: - **Operating system**: ### What is the current behavior? When parsing the cmd_def provided by the backend, pulse commands may be parameterized (typically phase shifts). These commands are sanitized before being passed to Sympy for parameter and expression extraction. Currently, this sanitization is too conservative and is failing on the string ```"-(P1)"```. ### Steps to reproduce the problem Create a cmd_def with a frame change command with the parameter ```"-(P1)"```. ### What is the expected behavior? This string should pass sanitization ### Suggested solutions Relax sanitization strictness to allow consecutive special match characters. In the long run, replace with a full math parser. Can you help me debug this systematically and explain your reasoning?


[System] You are an expert software debugging assistant. Help debug issues by analyzing problems systematically and providing clear, step-by-step reasoning.

[User] I'm having an issue with the ipython/ipython codebase. Here's the problem: Standalone WX GUI support is broken The example in `docs/lib/gui-wx.py` doesn't currently work, and I've failed in all simple attempts at fixing it. Since we can't hold the 0.11 release for any longer, I'm marking this as a known bug in the release notes, but we should get to the bottom of it. The other three examples (Qt, GTK, Tk) do run fine. Can you help me debug this systematically and explain your reasoning?


[System] You are an expert software debugging assistant. Help debug issues by analyzing problems systematically and providing clear, step-by-step reasoning.

[User] I'm having an issue with the googleapis/google-cloud-python codebase. Here's the problem: BigQuery: Add creationTime and expirationTime properties to TableListItem API reference: https://cloud.google.com/bigquery/docs/reference/rest/v2/tables/list The properties `creationTime` and `expirationTime` now appear in the API results for `list_tables()`. The `creationTime` properties is exposed as `Table.created`. A similar property needs to appear on `TableListItem`. https://github.com/GoogleCloudPlatform/google-cloud-python/blob/62740078538ea84167705c15bf109c1a2737c648/bigquery/google/cloud/bigquery/table.py#L387-L397 Likewise `Table.expires` needs a corresponding property. https://github.com/GoogleCloudPlatform/google-cloud-python/blob/62740078538ea84167705c15bf109c1a2737c648/bigquery/google/cloud/bigquery/table.py#L546-L556 Can you help me debug this systematically and explain your reasoning?


[System] You are an expert software debugging assistant. Help debug issues by analyzing problems systematically and providing clear, step-by-step reasoning.

[User] I'm having an issue with the googleapis/google-cloud-python codebase. Here's the problem: Batch upload fails when messages exceed API limit 1. OS type and version All OS and all versions supporting topic.Batch 2. Steps to reproduce Create a batch context & publish messages to it On batch commit an API failure occurs due to batch size being too large Suggestion: In the publish function check the serialised size of the message does not exceed 10MB and that the number of messages doesn't exceed 1000. If it does then commit the batch prematurely and clear the batch queue. I've crudely implemented it in my own project (just for size, not quantity): ``` class SizedBatch(topic.Batch): def __init__(self, topic, client): super(SizedBatch, self).__init__(topic, client) self.messages_size = 0 def publish(self, message, **attrs): self.topic._timestamp_message(attrs) item = {'data': message, 'attributes': attrs} self.messages.append(item) self.messages_size += len(base64.b64encode(json.dumps(item, ensure_ascii=False).encode('utf-8'))) if self.messages_size > 95e5: self.commit() self.messages_size = 0 ``` Of course this adds the published message to the queue before checking, allowing a case in which the message creates the API violation but from my own observations the API accepts messages of 15MB and sometimes of 20MB. This also does not take into account the other aspects of the message (which are largely insignificant compared to the message content). Another issue with this snippet is that self.messages_size is not reset if performing a manual commit() on the batch. Can you help me debug this systematically and explain your reasoning?


[System] You are an expert software debugging assistant. Help debug issues by analyzing problems systematically and providing clear, step-by-step reasoning.

[User] I'm having an issue with the googleapis/google-cloud-python codebase. Here's the problem: BigQuery: Add destination_table to %%bigquery magic to allow materializing query results Discussed with @tswast over email, suggestion is: We should not reuse the destination_var parameter. Also bq:// is not really something I've seen used in any other official BigQuery docs / libraries, and I don't think it's necessary. Instead, I recommend adding a --destination_table argument which sets QueryJobConfig.destination. Can you help me debug this systematically and explain your reasoning?


[System] You are an expert software debugging assistant. Help debug issues by analyzing problems systematically and providing clear, step-by-step reasoning.

[User] I'm having an issue with the huggingface/transformers codebase. Here's the problem: Implement PyTorch and/or TensorFlow sequence classification architectures for causal language models # 🚀 Feature request The architecture `GPT2ForSequenceClassification` was added in #7501 in PyTorch. It would be great to have it in TensorFlow (cf. issues #7622), but it would also be great to have it for other causal models: ~OpenAI GPT~, ~CTRL~ (PR opened @elk-cloner), ~TransfoXL~ (PR opened @spatil6) Below is a list of items to follow to make sure the integration of such an architecture is complete: - Implement `XXXForSequenceClassification` in `modeling_xxx.py` or `TFXXXForSequenceClassification` in `modeling_tf_xxx.py - Test that architecture in `tests/test_modeling_xxx.py` or `tests/test_modeling_tf_xxx.py` - Add that architecture to `__init__.py` and ` docs/source/model_doc/xxx.rst`. Taking a look at the code changes in #7501 would be a good start. A very good first issue to get acquainted with the library and its architectures! Can you help me debug this systematically and explain your reasoning?


[System] You are an expert software debugging assistant. Help debug issues by analyzing problems systematically and providing clear, step-by-step reasoning.

[User] I'm having an issue with the conda/conda codebase. Here's the problem: conda does not respect --quiet flag Loggers have been a little off since 4.3.18 or so. Can you help me debug this systematically and explain your reasoning?


[System] You are an expert software debugging assistant. Help debug issues by analyzing problems systematically and providing clear, step-by-step reasoning.

[User] I'm having an issue with the ipython/ipython codebase. Here's the problem: Add line number to error messages As suggested in #13169, it adds line number to error messages, in order to make them more friendly. ![image](https://user-images.githubusercontent.com/20190646/139513782-ea8d42ab-9c73-4452-b607-5c54ca50a125.png) That was the file used in the test ![image](https://user-images.githubusercontent.com/20190646/139513827-0aa4bed3-682f-40ee-a8ea-4f0e6e3fbc34.png) Can you help me debug this systematically and explain your reasoning?


[System] You are an expert software debugging assistant. Help debug issues by analyzing problems systematically and providing clear, step-by-step reasoning.

[User] I'm having an issue with the huggingface/transformers codebase. Here's the problem: Trainer's create_model_card creates an invalid yaml metadata `datasets: - null` ## Environment info - any env ### Who can help - discussed with @julien-c @sgugger and @LysandreJik ## Information - The hub will soon reject push with invalid model card metadata, - **only when `datasets`, `model-index` or `license` are present**, their content need to follow the specification cf. https://github.com/huggingface/huggingface_hub/pull/342 ## To reproduce Steps to reproduce the behavior: 1. Train a model 2. Do not association any datasets 3. The trained model and the model card are rejected by the server ## Expected behavior trainer.py git push should be successfull, even with the coming patch https://github.com/huggingface/transformers/pull/13514 Can you help me debug this systematically and explain your reasoning?


[System] You are an expert software debugging assistant. Help debug issues by analyzing problems systematically and providing clear, step-by-step reasoning.

[User] I'm having an issue with the Qiskit/qiskit codebase. Here's the problem: to support data section in qobj to run the same circuits multiple times with different input data <!-- ⚠ If you do not respect this template, your issue will be closed --> <!-- ⚠ Make sure to browse the opened and closed issues to confirm this idea does not exist. --> ### What is the expected behavior? I expect that with the same circuits, I can run it multiple times with different input data. In this case, I don't need to recompile the circuits multiple times. Every time when I want to run on new data, I just need to update the data section without updating other parts. For example, in this qasm below, I had one operation "u3(data:input_magic1,0,pi) q1[0]" and a data section with foreach. So if it will execute all circuits for every different input_magic1, it will be very great. OPENQASM 2.0;\ninclude \"qelib1.inc\";\nqreg q0[2];\nqreg q1[2];\ncreg c0[2];\ncreg c1[2];\nmeasure q1[1] -> c1[1];\nu3(data:input_magic1,0,pi) q1[0];\nmeasure q1[0] -> c1[0];\nu3(pi,0,pi) q0[1];\nmeasure q0[1] -> c0[1];\nu2(localinputvar1,0) q0[0];\nmeasure q0[0] -> c0[0]; section data: foreach (input_magic1: pi; input_magic1: 0.1; input_magic1: 0.2, input_magic1: 0.3) Can you help me debug this systematically and explain your reasoning?


[System] You are an expert software debugging assistant. Help debug issues by analyzing problems systematically and providing clear, step-by-step reasoning.

[User] I'm having an issue with the Qiskit/qiskit codebase. Here's the problem: Visualize pi-values as pi in parameter expressions <!-- ⚠ If you do not respect this template, your issue will be closed --> <!-- ⚠ Make sure to browse the opened and closed issues to confirm this idea does not exist. --> ### What is the expected enhancement? If the rotation angles are close to pi, `pi` will be displayed instead of the numeric value. This should also be the case for more complex `ParameterExpression`s. The `pi_check` function in `qiskit.visualization.tools` already recognizes if the angle is a `ParameterExpression` and calls the `__str__` method of this class. We probably can update this method to replace numerical values close to pi with the string literal `pi`. Here's an example: ```python >>> from qiskit.circuit import QuantumCircuit, Parameter >>> from qiskit.qasm import pi >>> x, y = Parameter('x'), Parameter('y') >>> circuit = QuantumCircuit(1) >>> circuit.rx((pi - x) * (pi - y), 0) >>> circuit.draw() ┌───────────────────────────────────────────────────┐ q_0: ┤ Rx((3.14159265358979 - x)*(3.14159265358979 - y)) ├ └───────────────────────────────────────────────────┘ ``` should produce ``` ┌───────────────────────┐ q_0: ┤ Rx((pi - x)*(pi - y)) ├ └───────────────────────┘ ``` Can you help me debug this systematically and explain your reasoning?


[System] You are an expert software debugging assistant. Help debug issues by analyzing problems systematically and providing clear, step-by-step reasoning.

[User] I'm having an issue with the apache/airflow codebase. Here's the problem: Warning e-mails are sent without the Date header The warning e-mails don't have the "Date" header. Can you help me debug this systematically and explain your reasoning?


[System] You are an expert software debugging assistant. Help debug issues by analyzing problems systematically and providing clear, step-by-step reasoning.

[User] I'm having an issue with the mesonbuild/meson codebase. Here's the problem: WARNING: Unknown CPU family 'sun4u' While building glib2 on a Solaris 11.3 sun4u system (using pkgsrc) the following warning is issued: WARNING: Unknown CPU family 'sun4u', please report this at https://github.com/mesonbuild/meson/issues/new with theoutput of `uname -a` and `cat /proc/cpuinfo` Output from 'uname -a': SunOS gcc-solaris11 5.11 11.3 sun4u sparc SUNW,SPARC-Enterprise Output from /proc/cpuinfo is not possible since this is not available on a Solaris 11 system. Output from the Solaris isainfo command: sparcv9 sparc Output from the Solaris isalist command: sparcv9+fmuladd sparcv9+vis2 sparcv9+vis sparcv9 sparcv8plus+vis2 sparcv8plus+vis sparcv8plus sparcv8 sparcv8-fsmuld sparcv7 sparc Can you help me debug this systematically and explain your reasoning?


[System] You are an expert software debugging assistant. Help debug issues by analyzing problems systematically and providing clear, step-by-step reasoning.

[User] I'm having an issue with the Qiskit/qiskit codebase. Here's the problem: An error occurs when displaying multiple Qbits with subscript names set in QuantumRegister using the QuantumCircuit draw method <!-- ⚠ If you do not respect this template, your issue will be closed --> <!-- ⚠ Make sure to browse the opened and closed issues --> ### Information - **Qiskit Terra version**: 0.10.0 - **Python version**: 3.7.4 - **Operating system**: Win10 ### What is the current behavior? Hi Team, There is no problem when displaying 1Qbit with the subscript name set in QuantumRegister with the draw method of QuantumCircuit. ![image](https://user-images.githubusercontent.com/12453501/69697789-e795b900-1126-11ea-8160-5e3492f9e75d.png) However, An error ( ParseFatalException ) occurs when displaying multiple Qbits with subscript names set in QuantumRegister using the QuantumCircuit draw method ![image](https://user-images.githubusercontent.com/12453501/69697929-478c5f80-1127-11ea-95da-e6ab6bcc8e31.png) By the way, if {} is not added, it will be displayed as follows: ![image](https://user-images.githubusercontent.com/12453501/69698527-de0d5080-1128-11ea-8a1e-78297febaa4e.png) ### Steps to reproduce the problem As I wrote above ### What is the expected behavior? I would like to be able to display multiple Qbits using the QuantumCircuit draw method for the subscript name set by the user in QuantumRegister. When displaying multiple Qbits with the QuantumCircuit draw method, a subscript of the number is added, so I would like the subscript specified by the user to be displayed even before the number ### Suggested solutions Please let me know if there are any method at this time Thank you. Can you help me debug this systematically and explain your reasoning?


[System] You are an expert software debugging assistant. Help debug issues by analyzing problems systematically and providing clear, step-by-step reasoning.

[User] I'm having an issue with the huggingface/transformers codebase. Here's the problem: Saving TFVisionEncoderDecoderModel as SavedModel: `The following keyword arguments are not supported by this model: ['attention_mask', 'token_type_ids'].` ### System Info - `transformers` version: 4.27.4 - Platform: Linux-6.2.6-76060206-generic-x86_64-with-debian-bookworm-sid - Python version: 3.7.16 - Huggingface_hub version: 0.13.4 - PyTorch version (GPU?): 1.13.1 (False) - Tensorflow version (GPU?): 2.11.0 (False) - Flax version (CPU?/GPU?/TPU?): not installed (NA) - Jax version: not installed - JaxLib version: not installed - Using GPU in script?: False - Using distributed or parallel set-up in script?: False ### Who can help? @gante Could be related to #16400? ### Information - [ ] The official example scripts - [X] My own modified scripts ### Tasks - [ ] An officially supported task in the `examples` folder (such as GLUE/SQuAD, ...) - [X] My own task or dataset (give details below) ### Reproduction Hello, I am trying to save a TFVisionEncoderDecoderModel in a SavedModel format. Specifically, I am using the `nlpconnect/vit-gpt2-image-captioning` pretrained model. It seems like the model is able to be intiallised from the PyTorch checkpoint. However, when trying to save it as a SavedModel, it fails with the error. ``` ValueError: The following keyword arguments are not supported by this model: ['attention_mask', 'token_type_ids']. ``` Link to Google Colab Reproduction: https://colab.research.google.com/drive/1N2TVejxiBT5S7bRJ2LSmJ8IIR45folGA#scrollTo=aIL92KqPDDjf Thanks for your time! ### Expected behavior The model should be saved as a SavedModel without problems, similarly to other pretrained models. Can you help me debug this systematically and explain your reasoning?


[System] You are an expert software debugging assistant. Help debug issues by analyzing problems systematically and providing clear, step-by-step reasoning.

[User] I'm having an issue with the gitpython-developers/GitPython codebase. Here's the problem: incorrect index mode for files which have a mode not in (0644, 0755) A recent [bug report](https://bugzilla.redhat.com/1963954) in Fedora revealed an issue where GitPython creates incorrect index modes for a file added which had mode `0700`. This is similar to issue #430 which was addressed in commit bebc4f56 (Use correct mode for executable files, 2016-05-19). I'll push a fix for this momentarily. This area could certainly use some tests. The previous commit did not add any tests for me to copy and extend. I'm happy to try to add some tests, but I'm not sure that I have enough time to bring myself up to speed. Any help would be more appreciated if we want tests to go along with this change. A very simple example of the issue is: ``` $ git init -q /tmp/git-test; cd /tmp/git-test ; touch foo ; chmod 700 foo $ python -c 'import git; repo = git.Repo(); repo.index.add(["foo"])' $ git ls-files -s 100744 e69de29bb2d1d6434b8b29ae775ad8c2e48c5391 0 foo ``` Can you help me debug this systematically and explain your reasoning?


[System] You are an expert software debugging assistant. Help debug issues by analyzing problems systematically and providing clear, step-by-step reasoning.

[User] I'm having an issue with the PrefectHQ/prefect codebase. Here's the problem: Allow users to register local flows without autogenerated labels ## Current behavior *Please describe how the feature works today* As it exists today, flows registered with local storage are auto-labeled with information related to their local machines, and there's no way to opt out. ## Proposed behavior *Please describe your proposed change to the current behavior* Auto-labeling provides a sensible default, but we should also provide a way to opt out of labels for local flows. ## Example *Please give an example of how the enhancement would be useful* As it stands today, it's cumbersome for users to run local flows registered on one machine on a different machine. While that's a pretty rare use case, we have had some folks opt to use Prefect in that way. Allowing users to toggle auto-generated labels would help remove some of that friction. Can you help me debug this systematically and explain your reasoning?


[System] You are an expert software debugging assistant. Help debug issues by analyzing problems systematically and providing clear, step-by-step reasoning.

[User] I'm having an issue with the conan-io/conan codebase. Here's the problem: Add a warning for files skipped in 'tar_extract' In the [`tar_extract` function](https://github.com/conan-io/conan/blob/556e2043e11bc53d6ad797519385b9b34dfdbb2d/conans/util/files.py#L293) we are skipping non-safe members: ```python def tar_extract(fileobj, destination_dir): """Extract tar file controlling not absolute paths and fixing the routes if the tar was zipped in windows""" def badpath(path, base): # joinpath will ignore base if path is absolute return not realpath(abspath(joinpath(base, path))).startswith(base) def safemembers(members): base = realpath(abspath(".")) for finfo in members: if badpath(finfo.name, base) or finfo.islnk(): continue else: ... ``` we should warn the user about those files. After #4965 this should be an exceptional behaviour, so a warning should be fine. Can you help me debug this systematically and explain your reasoning?


[System] You are an expert software debugging assistant. Help debug issues by analyzing problems systematically and providing clear, step-by-step reasoning.

[User] I'm having an issue with the Qiskit/qiskit codebase. Here's the problem: Remove legacy operators in opflow <!-- ⚠ If you do not respect this template, your issue will be closed --> <!-- ⚠ Make sure to browse the opened and closed issues to confirm this idea does not exist. --> ### What is the expected enhancement? In #5460 we migrated the opflow module from qiskit-aqua into terra as part of the migration it included a legacy submodule. This was left intact for ease of migration since there are still some dependencies on it. Before we release 0.17 we should remove this legacy operators. Can you help me debug this systematically and explain your reasoning?


[System] You are an expert software debugging assistant. Help debug issues by analyzing problems systematically and providing clear, step-by-step reasoning.

[User] I'm having an issue with the PrefectHQ/prefect codebase. Here's the problem: Documentation Request: ResultHandler ## Use Case *Please provide a use case to help us understand your request in context* I'm trying to create a custom ResultHandler for use with Prefect Cloud. I've noticed that the API Docs for the result handler ([here](https://docs.prefect.io/api/unreleased/engine/result_handlers.html#jsonresulthandler)) don't describe the interface of the ResultHandler class in sufficient detail for me to understand what I need to implement in a child class. ## Solution *Please describe your ideal solution* Please add more detail to the docs =] Can you help me debug this systematically and explain your reasoning?


[System] You are an expert software debugging assistant. Help debug issues by analyzing problems systematically and providing clear, step-by-step reasoning.

[User] I'm having an issue with the Lightning-AI/lightning codebase. Here's the problem: Early Stopping behavior Hi there, thanks for the great library (I am using 0.7.5.). I am not following the bug report template as I'm not sure this is indeed a bug, or simply I cannot understand how early stopping is implemented. My code looks as follows: early_stop_callback = EarlyStopping( monitor='val_acc', min_delta=0.0, patience=80, verbose=True, mode=self.mode ) trainer = Trainer( early_stop_callback=early_stop_callback, auto_select_gpus=True, max_epochs=200, terminate_on_nan=True, show_progress_bar=True, fast_dev_run=False, gpus=1 ) As I understand it, the model should perform early stopping after AT LEAST 80 epochs have passed without improvement on the validation accuracy. However, in my case, early stopping happened at epoch 75. Is this how it should be? As I said, I am not sure this is actually a bug or a choice (perhaps early stopping is implemented at the batch level?). If it is indeed a bug, I will work a reproducible example. Thank you! Can you help me debug this systematically and explain your reasoning?


[System] You are an expert software debugging assistant. Help debug issues by analyzing problems systematically and providing clear, step-by-step reasoning.

[User] I'm having an issue with the google/jax codebase. Here's the problem: grad bug: Forward-mode differentiation rule for 'reduce' not implemented I implemented the transformer in jax and got the following mysterious exception ``` File "jax_transformer.py", line 92, in _attn W_bhtt = stax.softmax(W_bhtt, axis=-1) File "/Users/joschu/Src/jax/jax/experimental/stax.py", line 52, in softmax unnormalized = np.exp(x - x.max(axis, keepdims=True)) File "/Users/joschu/Src/jax/jax/numpy/lax_numpy.py", line 771, in reduction result = lax.reduce(a, _reduction_init_val(a, init_val), op, dims) File "/Users/joschu/Src/jax/jax/lax.py", line 293, in reduce jaxpr=jaxpr, consts=consts, dimensions=tuple(dimensions)) File "/Users/joschu/Src/jax/jax/core.py", line 74, in bind out_tracer = top_trace.process_primitive(self, tracers, kwargs) File "/Users/joschu/Src/jax/jax/interpreters/ad.py", line 178, in process_primitive .format(primitive)) NotImplementedError: Forward-mode differentiation rule for 'reduce' not implemented ``` However, after replacing `stax.softmax` with my own softmax implementation that doesn't subtract out the max, the code runs just fine. (See `unstable_softmax` in the code linked below). To reproduce the bug, run bug=1 python jax_transformer.py alice.txt using https://github.com/joschu/jax-exp The code runs without error when `bug=1` is removed. Can you help me debug this systematically and explain your reasoning?


[System] You are an expert software debugging assistant. Help debug issues by analyzing problems systematically and providing clear, step-by-step reasoning.

[User] I'm having an issue with the ipython/ipython codebase. Here's the problem: interact doesn't work with instance methods This code: ``` python from IPython.html.widgets import interact class Foo(object): def show(self, x): print x f = Foo() interact(f.show, x=(1,10)) ``` produces this exception: ``` --------------------------------------------------------------------------- AttributeError Traceback (most recent call last) <ipython-input-58-b03b8685dfc0> in <module>() 7 f = Foo() 8 ----> 9 interact(f.show, x=(1,10)) /home/fperez/usr/lib/python2.7/site-packages/IPython/html/widgets/interaction.pyc in interact(__interact_f, **kwargs) 235 f = __interact_f 236 w = interactive(f, **kwargs) --> 237 f.widget = w 238 display(w) 239 return f AttributeError: 'instancemethod' object has no attribute 'widget' ``` Can you help me debug this systematically and explain your reasoning?


[System] You are an expert software debugging assistant. Help debug issues by analyzing problems systematically and providing clear, step-by-step reasoning.

[User] I'm having an issue with the Qiskit/qiskit codebase. Here's the problem: Remove `deepcopy` from `circuit_to_dag` <!-- ⚠ If you do not respect this template, your issue will be closed --> <!-- ⚠ Make sure to browse the opened and closed issues to confirm this idea does not exist. --> ### What is the expected enhancement? It's very slow. Can you help me debug this systematically and explain your reasoning?


[System] You are an expert software debugging assistant. Help debug issues by analyzing problems systematically and providing clear, step-by-step reasoning.

[User] I'm having an issue with the numpy/numpy codebase. Here's the problem: Cannot convert boolean arrays to ctypes with ctypeslib ctypeslib seems to be unable to convert Boolean numpy arrays to ctypes. ``` python import numpy as np a = np.empty(10, dtype=np.bool_) b = np.ctypeslib.as_ctypes(a) ``` Leads to: ``` KeyError Traceback (most recent call last) <ipython-input-3-e5712fdde6f3> in <module>() ----> 1 b = np.ctypeslib.as_ctypes(a) /home/chug/.local/lib/python2.7/site-packages/numpy/ctypeslib.py in as_ctypes(obj) 419 if readonly: 420 raise TypeError("readonly arrays unsupported") --> 421 tp = _typecodes[ai["typestr"]] 422 for dim in ai["shape"][::-1]: 423 tp = tp * dim KeyError: '|b1' ``` This is using Python 2.7.10 and numpy 1.9.2 on Scientific Linux release 6.6 (Carbon). My naive fix (I don't know much about the numpy internals and if this will break anything elsewhere) was adding the bool type to the type list in ctypeslib.py: ``` python simple_types = [ ((ct.c_byte, ct.c_short, ct.c_int, ct.c_long, ct.c_longlong), "i"), ((ct.c_ubyte, ct.c_ushort, ct.c_uint, ct.c_ulong, ct.c_ulonglong), "u"), ((ct.c_float, ct.c_double), "f"), ((ct.c_bool, ), "b"), ] ``` Now this works: ``` python In [1]: import numpy as np In [2]: a = np.empty(10, dtype=np.bool_) In [3]: b = np.ctypeslib.as_ctypes(a) In [4]: print(b) Out[4]: <numpy.ctypeslib.c_bool_Array_10 object at 0x7fd449652f80> ``` Can you help me debug this systematically and explain your reasoning?


[System] You are an expert software debugging assistant. Help debug issues by analyzing problems systematically and providing clear, step-by-step reasoning.

[User] I'm having an issue with the Qiskit/qiskit codebase. Here's the problem: Parameters are not tracked from within ControlFlowOp blocks ### Environment - **Qiskit Terra version**: 0.19.0dev @ 271a82f - **Python version**: any - **Operating system**: any ### What is happening? When adding a `ControlFlowOp` to `QuantumCircuit`, the parameter table is not updated with any of the parameters that occur in the bodies of the control-flow operators. ### How can we reproduce the issue? ```python In [1]: from qiskit.circuit import Parameter, QuantumCircuit ...: ...: x = Parameter("x") ...: y = Parameter("y") ...: ...: body = QuantumCircuit(1, 1) ...: body.rx(x, 0) ...: ...: main = QuantumCircuit(1, 1) ...: main.for_loop(y, range(1), body, [0], [0]) ...: ...: set(main.parameters) Out[1]: {Parameter(y)} ``` ### What should happen? The inner parameter `Parameter(x)` should have been tracked as well. ### Any suggestions? Likely update `QuantumCircuit._update_parameter_table` to pull parameters out of `ControlFlowOp` instances as well. With the way they store the bodies of the instructions in the `params` field, it's probably best just to teach `_update_parameter_table` to pull things out of `QuantumCircuit` instances as well. Can you help me debug this systematically and explain your reasoning?


[System] You are an expert software debugging assistant. Help debug issues by analyzing problems systematically and providing clear, step-by-step reasoning.

[User] I'm having an issue with the conan-io/conan codebase. Here's the problem: add support for linux on s390/s390x https://en.wikipedia.org/wiki/Linux_on_z_Systems In our CI we are running "normal" Linux distributions like Ubuntu and Red Hat on s390/s390x. To publish and fetch packages, we would need support for s390 (31bit, yes, gcc will need -m31) and s390x (64bit). ``` >>> import platform >>> platform.system() 'Linux' >>> platform.machine() 's390x' >>> platform.processor() 's390x' >>> ``` add support for linux on s390/s390x https://en.wikipedia.org/wiki/Linux_on_z_Systems In our CI we are running "normal" Linux distributions like Ubuntu and Red Hat on s390/s390x. To publish and fetch packages, we would need support for s390 (31bit, yes, gcc will need -m31) and s390x (64bit). ``` >>> import platform >>> platform.system() 'Linux' >>> platform.machine() 's390x' >>> platform.processor() 's390x' >>> ``` Can you help me debug this systematically and explain your reasoning?


[System] You are an expert software debugging assistant. Help debug issues by analyzing problems systematically and providing clear, step-by-step reasoning.

[User] I'm having an issue with the googleapis/google-cloud-python codebase. Here's the problem: Subscription.pull() fails with KeyError Hi, My code below fails with a KeyError coming from the library: ``` python sub = Subscription(SUBSCRIPTION_NAME, Topic(INCOMING_TOPIC_NAME)) while True: try: msgs = sub.pull() ... except: msg = 'poll %s: %s' % (SUBSCRIPTION_NAME, traceback.format_exc()) print msg ``` Fails with the message: ``` poll extractors: Traceback (most recent call last): File "main.py", line 46, in main msgs = sub.pull() File "/usr/local/lib/python2.7/dist-packages/gcloud/pubsub/subscription.py", line 176, in pull for info in response['receivedMessages']] KeyError: 'receivedMessages' ``` This seems like a bug on the pubsub library code. Can you help me debug this systematically and explain your reasoning?


[System] You are an expert software debugging assistant. Help debug issues by analyzing problems systematically and providing clear, step-by-step reasoning.

[User] I'm having an issue with the docker/compose codebase. Here's the problem: Missing secrets file creates a directory? When docker-compose up with the config below, if the **file mypass.txt** is missing, docker-compose creates an empty **directory mypass.txt**. Is that expected behaviour? ``` version: '3.1' services: app: image: alpine secrets: - mypass secrets: mypass: file: ./mypass.txt ``` macOS 10.13.1 Docker version 17.11.0-ce-rc3, build 5b4af4f docker-compose version 1.17.0, build ac53b73 Can you help me debug this systematically and explain your reasoning?


[System] You are an expert software debugging assistant. Help debug issues by analyzing problems systematically and providing clear, step-by-step reasoning.

[User] I'm having an issue with the Qiskit/qiskit codebase. Here's the problem: Default transpiler pipeline <!-- ⚠ If you do not respect this template, your issue will be closed --> <!-- ⚠ Make sure to browse the opened and closed issues to confirm this idea does not exist. --> ### What is the expected behavior? This is part of cleaning up the transpiler. Currently we have preserved backwards compatibility by following the old code path of circuit transformations when no pass manager is used in `compile()`. That old path is a bunch of hardcoded transformations. To fully complete the transition to the transpiler architecture, we need to remove that old path, and create a default pipeline of passes that gets used when `pass_manager=None`. Note that a PR that closes this issue must also close #157. Can you help me debug this systematically and explain your reasoning?


[System] You are an expert software debugging assistant. Help debug issues by analyzing problems systematically and providing clear, step-by-step reasoning.

[User] I'm having an issue with the Qiskit/qiskit codebase. Here's the problem: Incorrect drawing of composite gates with qubits and classical bits when using text drawer <!-- ⚠ If you do not respect this template, your issue will be closed --> <!-- ⚠ Make sure to browse the opened and closed issues --> ### Information - **Qiskit Terra version**: 0.18.0.dev0+2ecf45d - **Python version**: 3.7 ### What is the current behavior? Text drawer incorrectly draws composite gates that contain both qubits and classical bits. This error seems to arise only when appending the composite gate and the qreg_list or the creg_list provided to the qc.append() is not in ascending order. For instance consider the following code: ```python from qiskit import QuantumCircuit inst = QuantumCircuit(3, 2, name='inst').to_instruction() inst2 = QuantumCircuit(3,name='inst2').to_instruction() qc = QuantumCircuit(4,2) qc.append(inst,[2,1,0],[0,1]) qc.append(inst,[0,1,2],[1,0]) qc.append(inst2,[2,1,0]) qc.draw() ``` The text circuit drawn is as below: ![qiskit_text_error](https://user-images.githubusercontent.com/51048173/113936418-5b64cd00-9815-11eb-9ce2-7ac910e99d1d.png) Also, the numbering of the active wires is incorrect. ### Suggested solutions The error seems to be caused due to drawing the gate components in the incorrect ordering. Have a look at the following function will help. https://github.com/Qiskit/qiskit-terra/blob/2ecf45d90d47b430493e218b218d6639cabf7ff1/qiskit/visualization/text.py#L1211 Can you help me debug this systematically and explain your reasoning?


[System] You are an expert software debugging assistant. Help debug issues by analyzing problems systematically and providing clear, step-by-step reasoning.

[User] I'm having an issue with the huggingface/transformers codebase. Here's the problem: Xformers is not installed correctly. ### System Info - `transformers` version: 4.30.2 - Platform: Linux-5.15.0-76-generic-x86_64-with-glibc2.35 - Python version: 3.10.6 - Huggingface_hub version: 0.16.4 - Safetensors version: 0.3.1 - PyTorch version (GPU?): 2.0.1+cu117 (True) - Tensorflow version (GPU?): not installed (NA) - Flax version (CPU?/GPU?/TPU?): not installed (NA) - Jax version: not installed - JaxLib version: not installed - Using GPU in script?: yes - Using distributed or parallel set-up in script?: no ### Who can help? _No response_ ### Information - [ ] The official example scripts - [ ] My own modified scripts ### Tasks - [ ] An officially supported task in the `examples` folder (such as GLUE/SQuAD, ...) - [ ] My own task or dataset (give details below) ### Reproduction ``` python from transformers import pipeline pipe = pipeline("text-classification", model="roberta-base", device=0) ``` Edit: I know this model isn't trained for the "text-classification" task, I get the same problem with a private model I fine tuned. Results in the message ``` ... Xformers is not installed correctly. If you want to use memory_efficient_attention to accelerate training use the following command to install Xformers pip install xformers. ``` But I'm using torch==2.0.1 and [memory-efficient-attention](https://huggingface.co/docs/diffusers/optimization/fp16#memory-efficient-attention ) states "If you have PyTorch 2.0 installed, you shouldn’t use xFormers!" The message is confusing - I have torch 2.0 installed and pipeline is for inference. This message doesn't occur if I use `AutoModelForSequenceClassification.from_pretrained` ### Expected behavior The documentation or the warning message are inconsistent. Can you help me debug this systematically and explain your reasoning?


[System] You are an expert software debugging assistant. Help debug issues by analyzing problems systematically and providing clear, step-by-step reasoning.

[User] I'm having an issue with the mesonbuild/meson codebase. Here's the problem: Duplicate kwargs warning doesn't print filename or lineno ```meson project('duplicate kwarg', 'c') a = library('liba', 'a.c') b = library('libb', 'b.c') executable('main', 'main.c', link_with: a, link_with: b) ``` Only the last` link_with:` has effect. I guess this should be reported as an error. Can you help me debug this systematically and explain your reasoning?


[System] You are an expert software debugging assistant. Help debug issues by analyzing problems systematically and providing clear, step-by-step reasoning.

[User] I'm having an issue with the googleapis/google-cloud-python codebase. Here's the problem: [Documentation Issue] Page Name: pubsub-subscription Release: 0.12.0 The reference link for modify_ack_deadline points to the acknowledge method. "See: https://cloud.google.com/pubsub/reference/rest/v1/projects.subscriptions/acknowledge" Can you help me debug this systematically and explain your reasoning?


[System] You are an expert software debugging assistant. Help debug issues by analyzing problems systematically and providing clear, step-by-step reasoning.

[User] I'm having an issue with the Lightning-AI/lightning codebase. Here's the problem: Do not configure python logging ## 🐛 Bug pytorch-lightning right now configures the python logging module ([here](https://github.com/PyTorchLightning/pytorch-lightning/blob/8322f1b039c890b8ccdbfe29bf42056e5273d74f/pytorch_lightning/__init__.py#L16)). This is generally not recommended when writing a library as it makes it difficult for users to modify logging format (see [python docs](https://docs.python.org/3/howto/logging.html#configuring-logging-for-a-library), Stack Overflow [post](https://stackoverflow.com/questions/27016870/how-should-logging-be-used-in-a-python-package)). I would suggest deleting the configuration line. Can you help me debug this systematically and explain your reasoning?


[System] You are an expert software debugging assistant. Help debug issues by analyzing problems systematically and providing clear, step-by-step reasoning.

[User] I'm having an issue with the ipython/ipython codebase. Here's the problem: Tab completion for method arguments shows other functions args. With the below example class the args list that shows up when tab completing has arguments from other methods on the class that share the same root name. ```python class Test: def meth(self, meth_arg1): print("meth") def meth_1(self, meth1_arg1, meth1_arg2): print("meth1") def meth_2(self, meth2_arg1, meth2_arg2): print("meth2") ``` ![jupyter_autocomplete](https://user-images.githubusercontent.com/1692218/47118621-aa20e580-d21c-11e8-8ba5-7e3de2a1937e.png) Using jupyter==1.0.0, ipython==7.0.1 Can you help me debug this systematically and explain your reasoning?


[System] You are an expert software debugging assistant. Help debug issues by analyzing problems systematically and providing clear, step-by-step reasoning.

[User] I'm having an issue with the googleapis/google-cloud-python codebase. Here's the problem: Big query TIMESTAMP field off by factor of 1000 Using master branch. In BigQuery TIMESTAMP fields are off by a factor of 1000 when using fetch_data. See my in-line comment - https://github.com/GoogleCloudPlatform/gcloud-python/commit/41e64395661a31af8352fb2358e5c95ff5437830#diff-c56e349a3e511bfabb4e8dfcfe686bc8R739 Can you help me debug this systematically and explain your reasoning?


[System] You are an expert software debugging assistant. Help debug issues by analyzing problems systematically and providing clear, step-by-step reasoning.

[User] I'm having an issue with the conda/conda codebase. Here's the problem: Clarifying -n vs -p "error" messages New(ish) users don't always use the right flags. `-n` instead of `-p` is a pretty common failure mode. A recent interaction with a novice-ish conda user produced the following: > The error message is perplexing given that the supplied path is a legal Windows path. (I also tried enclosing the path in double quotes, to no avail). and the terminal output: ``` (base) C:\>conda create --clone base -n C:\ProgramData\Anaconda3\envs\py37 CondaValueError: Invalid environment name: 'C:\ProgramData\Anaconda3\envs\py37' Characters not allowed: ('/', ' ', ':', '#') ``` Suggested resolution would be to check if the argument passed to `-n` is a full path and, if so, suggest to the user that they may be meaning to use `-p` instead Can you help me debug this systematically and explain your reasoning?


[System] You are an expert software debugging assistant. Help debug issues by analyzing problems systematically and providing clear, step-by-step reasoning.

[User] I'm having an issue with the mesonbuild/meson codebase. Here's the problem: WARNING: Unknown CPU family 'rl78' I was trying to setup a meson cross build environment for the RL78 microprocessor family from Renesas. Technically it comes in 3 variants RL78-S1, RL78-S2, RL78-S3 that differ somewhat in their instruction set (e.g. hardware multiply support in S3) but the GCC compiler generally refers to it as RL78. Actual implementations of these cores are like: RL78-S1 core: RL78/G10 RL78-S2 core: RL78/G12, RL78/G13, RL78/G1A, RL78/G1E, RL78/G1C, RL78/I1A, RL78/F12, RL78/D1A, RL78/L12, and RL78/L13 RL78-S3 core: RL78/G14 In GCC again, these processors are selected with -mcpu=g13 or -mg13 Recognised options in GCC are g10, g13 and g14 for each of the 3 cores with option rl78 a synonym for g14 which is also the default. See also https://en.wikipedia.org/wiki/RL78 Can you help me debug this systematically and explain your reasoning?


[System] You are an expert software debugging assistant. Help debug issues by analyzing problems systematically and providing clear, step-by-step reasoning.

[User] I'm having an issue with the celery/celery codebase. Here's the problem: -u option does not exist ## Steps to reproduce Start -> celery -A application worker -l info ## Actual behavior RuntimeWarning: You're running the worker with superuser privileges: this is absolutely not recommended! Please specify a different user using the -u option. User information: uid=0 euid=0 gid=0 egid=0 uid=uid, euid=euid, gid=gid, egid=egid ## Fixes When displaying the help menu -> celery -A application worker -l info -h There is currently no longer a -u option and the warning should be changed to use --uid / --gid options Can you help me debug this systematically and explain your reasoning?


[System] You are an expert software debugging assistant. Help debug issues by analyzing problems systematically and providing clear, step-by-step reasoning.

[User] I'm having an issue with the PrefectHQ/prefect codebase. Here's the problem: Add Parameter Specification to run CLI command ## Current behavior Currently the CLI command doesn't allow for the specification of parameters for a flow run ## Proposed behavior Couple options we could take here: Multiple --parameter NAME=VALUE options (e.g. each --parameter similar to how docker build does --build-arg) Single --parameters {name: value} that takes a dictionary Also we should have a file option where you can provide a json file Can you help me debug this systematically and explain your reasoning?


[System] You are an expert software debugging assistant. Help debug issues by analyzing problems systematically and providing clear, step-by-step reasoning.

[User] I'm having an issue with the ipython/ipython codebase. Here's the problem: bad message when %pylab fails due import *other* than matplotlib this is just to capture an issue that was sent to IPython-User by @michaelaye: > I know you guys are busy getting a release on 1.0 done, so here's some > feedback trying to use git master: > > In version > rel-0.13-3590-gadb77e3 > matplotlib is not found, even so it is importable, so when using pylab > mode I get an error message: > > Python 2.7.3 |EPD 7.3-2 (64-bit)| (default, Apr 12 2012, 11:14:05) > Type "copyright", "credits" or "license" for more information. > > IPython 1.0.dev -- An enhanced Interactive Python. > ? -> Introduction and overview of IPython's features. > %quickref -> Quick reference. > help -> Python's own help system. > object? -> Details about 'object', use 'object??' for extra details. > > In [1]: import matplotlib > > In [2]: pylab > ERROR: pylab mode doesn't work as matplotlib could not be found. > Is it installed on the system? > > And since version ((rel-0.13-3681-g123ae5a)) up to now I get an import > error for the sip module (using --pylab=qt) > > ImportError: No module named sip > > Michael Can you help me debug this systematically and explain your reasoning?


[System] You are an expert software debugging assistant. Help debug issues by analyzing problems systematically and providing clear, step-by-step reasoning.

[User] I'm having an issue with the dagster-io/dagster codebase. Here's the problem: Configuration of dagster CLI command options with environment variables ### Problem to solve The `dagit` CLI allows command options to be set via environment variables using the `DAGIT` prefix, implemented with Click's [auto_envvar_prefix](https://click.palletsprojects.com/en/7.x/options/?highlight=auto_envvar_prefix#values-from-environment-variables) feature. I would like to be able to do the same with the `dagster` CLI. ### Intended users * DevOps Engineer ### User experience goal It should be possible to configure `dagster` CLI options in the same way as `dagit` CLI options. ### Proposal **Current state**: When running the Dagster gRPC server, for example, the values for module name, host, and port have to be passed as direct CLI arguments. ``` dagster api grpc --module-name sa_pipelines --host 0.0.0.0 --port 4266 ``` **Proposed state**: It would be nice to be able to set the arguments as environment variables. If Dagster's Click config had `auto_envvar_prefix="DAGSTER"` set, it would be possible to do something like this. ``` export DAGSTER_API_GRPC_MODULE_NAME=sa_pipelines export DAGSTER_API_GRPC_HOST=0.0.0.0 export DAGSTER_API_GRPC_PORT=4266 dagster api grpc ``` The values for `--module-name`, `--host`, and `--port` are picked up from the environment variables. ### Further details I would like to use environment variables mostly for containerization purposes. * [Dagit's auto_envvar_prefix declaration](https://github.com/dagster-io/dagster/blob/7f323b76be9aef19fadf55c7d3578be4aae7431e/python_modules/dagit/dagit/cli.py#L198) * [Click's auto_envvar_prefix docs](https://click.palletsprojects.com/en/7.x/options/?highlight=auto_envvar_prefix#values-from-environment-variables) Can you help me debug this systematically and explain your reasoning?


[System] You are an expert software debugging assistant. Help debug issues by analyzing problems systematically and providing clear, step-by-step reasoning.

[User] I'm having an issue with the huggingface/transformers codebase. Here's the problem: Do we use JSON lines or JSON only for run_translation.py in PyTorch? ### Who can help Models: - maintained examples (not research project or legacy): @sgugger, @patil-suraj ## Information The run_translation.py file requires that we pass `train_file` and `validation_file` as **json** file only, see: https://github.com/huggingface/transformers/blob/master/examples/pytorch/translation/run_translation.py#L219 However, the [README](https://github.com/huggingface/transformers/tree/master/examples/pytorch/translation) states that > The task of translation supports only custom JSONLINES files, with each line being a dictionary with a key "translation" and its value another dictionary whose keys is the language pair Also in the example just above this line, it references jsonlines: ```bash python examples/pytorch/translation/run_translation.py \ --model_name_or_path t5-small \ ... --train_file path_to_jsonlines_file \ --validation_file path_to_jsonlines_file \ ... ``` Similarly, from the argument description: https://github.com/huggingface/transformers/blob/master/examples/pytorch/translation/run_translation.py#L115 I have made a merge request to address, what I believe, is an issue. Please correct me if I'm wrong. Thanks. Can you help me debug this systematically and explain your reasoning?


[System] You are an expert software debugging assistant. Help debug issues by analyzing problems systematically and providing clear, step-by-step reasoning.

[User] I'm having an issue with the Qiskit/qiskit codebase. Here's the problem: Support PauliGate in qpy <!-- ⚠ If you do not respect this template, your issue will be closed --> <!-- ⚠ Make sure to browse the opened and closed issues --> ### Information - **Qiskit Terra version**: - **Python version**: - **Operating system**: ### What is the current behavior? Serializing a circuit with a PauliGate fails with ``` File "/Users/jessieyu/Documents/Q/Github/qiskit-terra/qiskit/circuit/qpy_serialization.py", line 824, in dump _write_circuit(file_obj, circuit) File "/Users/jessieyu/Documents/Q/Github/qiskit-terra/qiskit/circuit/qpy_serialization.py", line 867, in _write_circuit _write_instruction(instruction_buffer, instruction, custom_instructions, index_map) File "/Users/jessieyu/Documents/Q/Github/qiskit-terra/qiskit/circuit/qpy_serialization.py", line 724, in _write_instruction raise TypeError( TypeError: Invalid parameter type <qiskit.circuit.library.generalized_gates.pauli.PauliGate object at 0x13bde8730> for gate <class 'str'>, ``` ### Steps to reproduce the problem ``` circ = (X ^ Y ^ Z).to_circuit_op().to_circuit() qpy_serialization.dump(buff, circ) ``` ### What is the expected behavior? The circuit can be serialized. Also the error message seems backwards - should have said `Invalid parameter type 'str' for gate 'PauliGate'` instead. ### Suggested solutions Allow string as a valid parameter for gates. Can you help me debug this systematically and explain your reasoning?


[System] You are an expert software debugging assistant. Help debug issues by analyzing problems systematically and providing clear, step-by-step reasoning.

[User] I'm having an issue with the conda/conda codebase. Here's the problem: Allow activating multiple environments Hi, I'm trying to configure conda to use it on a computing cluster with command line access for multiple users (~300 accounts). The idea is that we will provide to users some preinstalled conda environments that they can use as they need. Some people will want to activate several of these environments to perform their compute task. The problem is that the `activate` script calls `deactivate` before doing the activation job, so users can only have 1 environment loaded. I know that activating multiple environments could be a problem as some incompatibility could arise depending on the packages installed in each env. But in our case, in many situations, it would work perfectly well (and if it's not, users would be able to take care of it). So I'm wondering if you think this feature could be added to conda somehow? Maybe with a special option for the activate script, and a modification to deactivate to allow it to deactivate _all_ the loaded env. I can work on a PR if you are ok with the idea. The other option would be to force them to adopt the proper conda way (they create their own environments), but it would make the transition too hard for most of them... Can you help me debug this systematically and explain your reasoning?


[System] You are an expert software debugging assistant. Help debug issues by analyzing problems systematically and providing clear, step-by-step reasoning.

[User] I'm having an issue with the googleapis/google-cloud-python codebase. Here's the problem: Release spanner 1.4.0 This pull request was generated using releasetool. Fixes #5466 5465 Can you help me debug this systematically and explain your reasoning?


[System] You are an expert software debugging assistant. Help debug issues by analyzing problems systematically and providing clear, step-by-step reasoning.

[User] I'm having an issue with the mesonbuild/meson codebase. Here's the problem: Support compilation of LLVM-IR .ll => .o This can be accomplished through either llc or clang. Can you help me debug this systematically and explain your reasoning?


[System] You are an expert software debugging assistant. Help debug issues by analyzing problems systematically and providing clear, step-by-step reasoning.

[User] I'm having an issue with the ipython/ipython codebase. Here's the problem: python crashes when importing matplotlib in terminal mode on m1 mac Hello community, I am experiencing the following crash when trying to plot from the command line on my M1 mac: ``` (base) ➜ ~ ipython Python 3.9.1 | packaged by conda-forge | (default, Jan 26 2021, 01:30:54) Type 'copyright', 'credits' or 'license' for more information IPython 7.20.0 -- An enhanced Interactive Python. Type '?' for help. In [1]: import matplotlib In [2]: matplotlib.get_backend() Out[2]: 'MacOSX' In [3]: [1] 2797 bus error ipython ``` Even more weird, if I try to set any value of `c.InteractiveShellApp.matplotlib` in the `ipython_config.py`, the crash occurs instantly (that is, when ipython starts). In "vanilla" python REPL, everything works as expected. My ipython (7.20.0) and matplotlib (3.3.4) are installed through conda and this is otherwise a "fresh" install. Any help is appreciated! Can you help me debug this systematically and explain your reasoning?


[System] You are an expert software debugging assistant. Help debug issues by analyzing problems systematically and providing clear, step-by-step reasoning.

[User] I'm having an issue with the Lightning-AI/lightning codebase. Here's the problem: cuda runtime error (101) : invalid device ordinal CUDA_VISIBLE_DEVICES and ddp are not compatible. https://github.com/PyTorchLightning/pytorch-lightning/blob/25ee51bc570503f331dceecc610d0eb355e22327/pytorch_lightning/trainer/distrib_data_parallel.py#L504 the pytorch respects the CUDA_VISIBLE_DEVICES. gpu_idx should be the same as local_rank. If I set CUDA_VISIBLE_DEVICES to be 1. It will break. Can you help me debug this systematically and explain your reasoning?


[System] You are an expert software debugging assistant. Help debug issues by analyzing problems systematically and providing clear, step-by-step reasoning.

[User] I'm having an issue with the ipython/ipython codebase. Here's the problem: IPython/utils/py3compat.py unused `with_metaclass` function. The function `with_metaclass` seem to be unused; we should : check if it is used, if not remove the function . Can you help me debug this systematically and explain your reasoning?


[System] You are an expert software debugging assistant. Help debug issues by analyzing problems systematically and providing clear, step-by-step reasoning.

[User] I'm having an issue with the ipython/ipython codebase. Here's the problem: Command line "ipython trust" option does not work I'm working with a slideshow template I found on Fernando's github account: https://github.com/fperez/nb-slideshow-template When I open the notebook, IPython complains that it isn't trusted. When I close the notebook, kill the server, run `ipython trust my_notebook.ipynb`, and then restart the notebook, I get the same warning about the notebook not being trusted. I was able to work around this issue using the "Trust this notebook" option in the File dropdown menu on the notebook web interface. Can you help me debug this systematically and explain your reasoning?


[System] You are an expert software debugging assistant. Help debug issues by analyzing problems systematically and providing clear, step-by-step reasoning.

[User] I'm having an issue with the mesonbuild/meson codebase. Here's the problem: Automatically create build directory if it does not exist Currently, invoking meson in a project root folder with a non created build folder leads to: ``` % meson build Error during basic setup: [Errno 2] No such file or directory: '/some/path/build' ``` Since meson can find that the current folder contains a `meson.build` file, and that it probably also knows that `build` is my expected build directory. Should not it create it itself? I personally don't see any value invoking `mkdir build && meson build` while `meson build` could do the trick. I can submit a PR for that if wished but I'd like to know your opinion on that first. (in a second time I would also love to have some `meson --build` argument which would invoke backend automatically, so that you finally simply type `meson --build <buildfolder>`; bypassing always-the-same `mkdir` and `cd` commands). Can you help me debug this systematically and explain your reasoning?


[System] You are an expert software debugging assistant. Help debug issues by analyzing problems systematically and providing clear, step-by-step reasoning.

[User] I'm having an issue with the conan-io/conan codebase. Here's the problem: Transitive python_requires does no longer work since Conan 1.17 (in combination with lockfile) Hi @memsharded, @lasote and @jgsogo, since Conan 1.17 there is an issue with transitive python_requires references. To reproduce you just need the following: 1. define a simple conan file which can be used as python_requires. Let's call it "base_helper". ```python from conans import ConanFile def hello_world(): message = "Hello World" print(message) return message class MyBaseConan(ConanFile): name = "base_helper" version = "1.2.3" # .. ``` 2. create another simple conan file which can be used as python_requires. Let's call it "impl_helper" ```python from conans import ConanFile, tools from conans import python_requires #@UnresolvedImport my_base= python_requires("base_helper/1.2.3@user/channel") test = my_base.hello_world() class ImplConan(ConanFile): name = "impl_helper" version = "2.3.4" ``` 3. create a "normal" package recipe which python_requires "impl_helper" ```python from conans import ConanFile, tools from conans import python_requires #@UnresolvedImport python_requires("impl_helper/2.3.4@user/channel") class DummyexampleConan(ConanFile): name = "DummyExample" version = "0.0.1" settings = "os", "compiler", "build_type", "arch" ``` If you now call ```conan install DummyExample/0.0.1@user/channel``` and after that ```conan source``` (or something else) it will end in an error. Also ```conan graph lock DummyExample/0.0.1@test/testing``` shows the same result. Best Aalmann Can you help me debug this systematically and explain your reasoning?


[System] You are an expert software debugging assistant. Help debug issues by analyzing problems systematically and providing clear, step-by-step reasoning.

[User] I'm having an issue with the conan-io/conan codebase. Here's the problem: b2 generator doesn't specify transitive dependencies Boost.Build targets created by files produced by b2 generator don't list their dependencies. As a result of that, if you `require` package `A` which depends on package `B`, and then you use a target for package `A`, you are likely to encounter a build error, because the build system is not aware of dependency between `A` and `B`. Example project: ```python # conanfile.py from conans import ConanFile class FoobarConan(ConanFile): name = 'foobar' version = '0.0.1' settings = 'arch', 'os', 'compiler' requires = 'boost_core/[>=1.68]@bincrafters/stable' build_requires = 'b2/4.0.0' generators = "b2" exports_sources = "jamroot.jam", "*.cpp" def build(self): self.run('b2') ``` ```jam # jamroot.jam project foobar ; # Boost.Core actually depends on Boost.Config lib foobar : foobar.cpp /boost_core//libs ; ``` ```c++ // foobar.cpp #include <boost/core/null_deleter.hpp> ``` Relevant Conan version: 1.18.5 - [X] I've read the [CONTRIBUTING guide](https://github.com/conan-io/conan/blob/develop/.github/CONTRIBUTING.md). - [X] I've specified the Conan version, operating system version and any tool that can be relevant. - [X] I've explained the steps to reproduce the error or the motivation/use case of the question/suggestion. Can you help me debug this systematically and explain your reasoning?


[System] You are an expert software debugging assistant. Help debug issues by analyzing problems systematically and providing clear, step-by-step reasoning.

[User] I'm having an issue with the conan-io/conan codebase. Here's the problem: [feature] Allow defining settings for a downstream consumer (different than upstream dependencies) Continuation from https://github.com/conan-io/conan/pull/9129 The command ``conan install . -s pkg:build_type=Debug -s build_type=Release``, to have all dependencies in Release, but build your current project as Debug has some limitations: - It requires a conanfile.py, that defines the ``name = "pkg"`` - conanfile.txt will not allow this - conanfile.py without a name will not allow this The solution could be some kind of placeholder that means "current consumer", something like ``conan install . -s $:build_type=Debug -s build_type=Release`` Can you help me debug this systematically and explain your reasoning?


[System] You are an expert software debugging assistant. Help debug issues by analyzing problems systematically and providing clear, step-by-step reasoning.

[User] I'm having an issue with the conan-io/conan codebase. Here's the problem: Prevent conan alias from overwriting existing packages When creating an alias package with `conan alias` it is easy to mix up the order of parameters: * Correct: `conan alias boost/ALIAS@conan/stable boost/1.69.0@conan/stable` * Wrong: `conan alias boost/1.69.0@conan/stable boost/ALIAS@conan/stable` In case you're accidentally calling the wrong order you're overwriting the package you initially wanted to reference. If this happens you render your original package useless and need to remove it. Then you can start all over again. It would be perfect to have a built-in check that tells the user that the existing package `boost/1.69.0@conan/stable` already exists and will be overwritten by an alias package - and if the user is really sure this is what he wants to do. Happens to me with Conan 1.11.0. Can you help me debug this systematically and explain your reasoning?


[System] You are an expert software debugging assistant. Help debug issues by analyzing problems systematically and providing clear, step-by-step reasoning.

[User] I'm having an issue with the dagster-io/dagster codebase. Here's the problem: Change reloading feature to watchman or similar process-based mechanism I think it is time to rip out the reloader and rely on a process-based reloading mechanism. This is the second time it has caused difficult-to-diagnose bugs. In the hands of the general public this will be a pretty serious. @Aylr has a watchman-based workflow I believe. How can we make this happen automatically. This would also allow us to remove the RepositoryContainer nonsense which is maybe the hairiest and most difficult-to-understand part of the codebase. @Aylr was using the watchman-based workflow a serious regression? Reloading time in between file saves was likely longer. Can you help me debug this systematically and explain your reasoning?


[System] You are an expert software debugging assistant. Help debug issues by analyzing problems systematically and providing clear, step-by-step reasoning.

[User] I'm having an issue with the Lightning-AI/lightning codebase. Here's the problem: Model.load_from_checkpoint tries to open file path as URL and fail ## 🐛 Bug load_from_checkpoint tries to classify if the input is a file path or an URL and detects the hard drive letter as a scheme and then classify wrongly the input because of this. urllib.error.URLError: \<urlopen error unknown url type: d\> My input: D:\Prog\Projects\AceriNet\research_seed\checkpoints\acerinet\bnacerinet0_target=OVA_OK_penalized=None_loss_fn=ce_normalized=True_balanced=FalseFalse_seed=42_val_loss=0.374_val_auroc=0.9041_v0.ckpt ### To Reproduce Steps to reproduce the behavior: Use any path with a hard drive letter at the start (windows formatting) for pl.LightningModule().load_from_checkpoint(path) Can you help me debug this systematically and explain your reasoning?


[System] You are an expert software debugging assistant. Help debug issues by analyzing problems systematically and providing clear, step-by-step reasoning.

[User] I'm having an issue with the numpy/numpy codebase. Here's the problem: Add API documentation for np.distutils.core.Extension class [The f2py docs mention](https://docs.scipy.org/doc/numpy/f2py/distutils.html) that the `numpy.distutils.core.Extension` class can be used, but as far as I can tell there is no documentation of this class either in the main numpy documentation or in the f2py documentation. Can you help me debug this systematically and explain your reasoning?


[System] You are an expert software debugging assistant. Help debug issues by analyzing problems systematically and providing clear, step-by-step reasoning.

[User] I'm having an issue with the Qiskit/qiskit codebase. Here's the problem: move initializer optimizations to transpiler <!-- ⚠ If you do not respect this template, your issue will be closed --> <!-- ⚠ Make sure to browse the opened and closed issues to confirm this idea does not exist. --> ### What is the expected enhancement? The arbitrary state initializer is based on https://arxiv.org/abs/quant-ph/0406176v5, and it implements some of the optimizations that the paper talks about to reduce the depth. But the optimizations are ad-hoc, and they don't fully capture all optimization opportunities. We should make the synthesizer dumb, and relegate the optimizations to the transpiler. For example, consider the circuit for initializing `[1/math.sqrt(2), 0, 0, 0, 0, 0, 0, 1/math.sqrt(2)]`. The non-optimized/canonical synthesis is: ![image](https://user-images.githubusercontent.com/8622381/54077816-c553c680-428b-11e9-9ef7-7d83999c20f8.png) The optimized version as implemented currently is: ![image](https://user-images.githubusercontent.com/8622381/54077799-a1908080-428b-11e9-93b6-c672c7629617.png) Note that this manual optimization misses the fact that the last 4 CNOTs can be removed also. If we just relegate all optimizations to the transpiler, then optimizing this circuit is fairly straightforward. It involves removing zero rotations, removing adjacent CNOTs, and commuting CNOTs that share a target but are on different qubits (these passes have to be done repetitively until converging to a fixed-point). I'm removing these optimizations from the initializer as part of the refactoring in #1816. This issue should be fixed through the construction of a default pass manager that addresses the above. Can you help me debug this systematically and explain your reasoning?


[System] You are an expert software debugging assistant. Help debug issues by analyzing problems systematically and providing clear, step-by-step reasoning.

[User] I'm having an issue with the mesonbuild/meson codebase. Here's the problem: Several GNU directory options are not available I see several [predefined directory options](https://github.com/mesonbuild/meson/blob/master/mesonbuild/coredata.py#L202), but several of the [GNU Coding Standard directories](https://www.gnu.org/prep/standards/html_node/Directory-Variables.html) are missing, notably `sysconfdir` being the main one. Can you help me debug this systematically and explain your reasoning?


[System] You are an expert software debugging assistant. Help debug issues by analyzing problems systematically and providing clear, step-by-step reasoning.

[User] I'm having an issue with the celery/celery codebase. Here's the problem: Specifying app/backend in GroupResult.restore is slightly awkward In Celery 3.x I used `GroupResult.restore('some-id')` and it somehow found my app and figured out the backend (not sure how, but it worked). In Celery 4.x this does not work (it does not find the backend and crashes). That makes sense to me (I like the idea of explicit apps a lot!). `GroupResult.restore()` does not accept a `app` argument which would be convenient. It does however support a `backend` argument, so I changed my code to use `GroupResult.restore('my-id', backend=app.backend)` and everything is fine. However, to me this is not that super-intuitive, my suggestion is that we should add an `app` kwarg to `restore()` that can be used like: ```py GroupResult.restore('someid', app=app) ``` Do you think this makes sense? Then I'd be happy to work on a PR to add the argument! Can you help me debug this systematically and explain your reasoning?


[System] You are an expert software debugging assistant. Help debug issues by analyzing problems systematically and providing clear, step-by-step reasoning.

[User] I'm having an issue with the conan-io/conan codebase. Here's the problem: [bug] Error in workspace graph with several build_requires consuming same package Changelog: (Feature | Fix | Bugfix): Describe here your pull request Docs: https://github.com/conan-io/docs/pull/XXXX Reproduce issue in #5612 Can you help me debug this systematically and explain your reasoning?


[System] You are an expert software debugging assistant. Help debug issues by analyzing problems systematically and providing clear, step-by-step reasoning.

[User] I'm having an issue with the Lightning-AI/lightning codebase. Here's the problem: ddp_backend in 0.9.0rc12 fails if no CUDA_VISIBLE_DEVICES found ## 🐛 Bug In ddp_backend, training immediately fails if the environment variable CUDA_VISIBLE_DEVICES isn't set. This line should handle the None case gracefully: https://github.com/PyTorchLightning/pytorch-lightning/blob/master/pytorch_lightning/accelerators/ddp_backend.py#L90 ### To Reproduce Start a run using ddp on CPU. This was discovered using torchelastic to launch #### Code sample <!-- Ideally attach a minimal code sample to reproduce the decried issue. Minimal means having the shortest code but still preserving the bug. --> ### Expected behavior This shouldn't crash if the environment variable isn't set. We could default to `num_gpus = 0` in this case. Replacing the line above with something like this could work: `num_gpus = os.environ.get('CUDA_VISIBLE_DEVICES', []).split(',').__len__() ` Can you help me debug this systematically and explain your reasoning?


[System] You are an expert software debugging assistant. Help debug issues by analyzing problems systematically and providing clear, step-by-step reasoning.

[User] I'm having an issue with the ipython/ipython codebase. Here's the problem: pastebin magic does not work: github requires authentication to create gists Github now [requires authentication](https://developer.github.com/v3/gists/#authentication) to create gists: > You can read public gists anonymously, but you must be signed into GitHub to create gists. `%pastebin` does not work anymore and returns 401: HTTPError: HTTP Error 401: Unauthorized Can you help me debug this systematically and explain your reasoning?


[System] You are an expert software debugging assistant. Help debug issues by analyzing problems systematically and providing clear, step-by-step reasoning.

[User] I'm having an issue with the Qiskit/qiskit codebase. Here's the problem: Big overhead in parallel transpile for large target systems ### Environment - **Qiskit Terra version**: `0.19.2` - **Python version**: 3.8 - **Operating system**: Linux ### What is happening? There is a large overhead when doing parallel transpilation for circuits targeting larger systems. In the case below they are targeting the 127Q system, but the circuits themselves consist of only `x` gates and are already the correct width. Thus transpilation should just be a pass-through. However, in parallel mode (quad-core machine) it takes 330sec to transpile. If I turn off parallel transpile it takes 3sec. ```python from qiskit import * from mthree.circuits import balanced_cal_strings, balanced_cal_circuits b_strs = balanced_cal_strings(127) cal_circs = balanced_cal_circuits(b_strs) backend = provider.backend.ibm_washington trans_circs = transpile(cal_circs, backend, optimization_level=0) ``` ### How can we reproduce the issue? Run above ### What should happen? Parallel should not give 100x overhead. ### Any suggestions? I am guessing this is copying overhead from forking when the systems are large. Can you help me debug this systematically and explain your reasoning?


[System] You are an expert software debugging assistant. Help debug issues by analyzing problems systematically and providing clear, step-by-step reasoning.

[User] I'm having an issue with the conan-io/conan codebase. Here's the problem: Add additional default LLVM toolsets Add to the default settings: ``` LLVM-vs2012, LLVM-vs2012_xp, LLVM-vs2013, LLVM-vs2013_xp, LLVM-vs2017, LLVM-vs2017_xp ``` Should it be possible to add wildcard settings? Like `LLVM-vs*`? Can you help me debug this systematically and explain your reasoning?


[System] You are an expert software debugging assistant. Help debug issues by analyzing problems systematically and providing clear, step-by-step reasoning.

[User] I'm having an issue with the celery/celery codebase. Here's the problem: Please use `sys.exit()` or flush STDERR if failed on `platform.check_privileges` https://github.com/celery/celery/blob/a3c377474ab1109a26de5169066a4fae0d30524b/celery/platforms.py#L794:24 The way it is now, the message could be lost because `os._exit()` does not flushes STDERR. Why are we using `os._exit()` instead of the recommended `sys.exit()`? I can provide a PR if asked, but please clarify why the `os._exit()` before the patch is written. Can you help me debug this systematically and explain your reasoning?


[System] You are an expert software debugging assistant. Help debug issues by analyzing problems systematically and providing clear, step-by-step reasoning.

[User] I'm having an issue with the dagster-io/dagster codebase. Here's the problem: `@deprecated` doesn't render on properties in the API docs ### What's the issue or suggestion? Making this render a deprecated badge should require a small tweak to `autodoc_dagster`. ### Additional information _No response_ ### Message from the maintainers Impacted by this issue? Give it a 👍! We factor engagement into prioritization. Can you help me debug this systematically and explain your reasoning?


[System] You are an expert software debugging assistant. Help debug issues by analyzing problems systematically and providing clear, step-by-step reasoning.

[User] I'm having an issue with the google/jax codebase. Here's the problem: Grad should raise an error for non-inexact types Continuation of https://github.com/google/jax/issues/48 . `grad` should report an error for integer/bool types (i.e., non-inexact types): e.g., this example should report an error: ``` def square(x): return x**2 val = 3 dfn = grad(square) print(dfn(val)) ``` Can you help me debug this systematically and explain your reasoning?


[System] You are an expert software debugging assistant. Help debug issues by analyzing problems systematically and providing clear, step-by-step reasoning.

[User] I'm having an issue with the mesonbuild/meson codebase. Here's the problem: --backend=vs2019 EntryPointSymbol incorrect for 'UNICODE' projects **Describe the bug** vcxproj files generated by meson have an incorrect EntryPointSymbol for UNICODE applications (ie. those that have an entry point of wmain (console) or wWinMain (gui)). ``` 2>MSVCRTD.lib(exe_main.obj) : error LNK2019: unresolved external symbol main referenced in function "int __cdecl invoke_main(void)" (?invoke_main@@YAHXZ) 2>.\main.exe : fatal error LNK1120: 1 unresolved externals ``` Removing EntryPointSymbol from all generated .vcxproj files works around the issue. Ninja builds do not have this issue. **To Reproduce** meson.build: ``` meson project('wmain', 'c') executable('main', 'wmain.c') ``` wmain.c: ``` c #include <stdio.h> int wmain(int argc, wchar_t *argv[]) { printf("Hello, World!\n"); } ``` **Expected behavior** main.exe should be generated instead of a link error. **system parameters** This is a native build, with Visual Studio 2019, on Windows 10, with meson and ninja from the official 0.53.1 MSI (I looked at the code, and it's still the same in master on github). Can you help me debug this systematically and explain your reasoning?


[System] You are an expert software debugging assistant. Help debug issues by analyzing problems systematically and providing clear, step-by-step reasoning.

[User] I'm having an issue with the conan-io/conan codebase. Here's the problem: [Enhancement] Output of `conan config install` exposes preconfigured URL (which may include a password) To help us debug your issue please explain: - [X] I've read the [CONTRIBUTING guide](https://raw.githubusercontent.com/conan-io/conan/develop/.github/CONTRIBUTING.md). - [X] I've specified the Conan version, operating system version and any tool that can be relevant. - [X] I've explained the steps to reproduce the error or the motivation/use case of the question/suggestion. On our CI system, the first build step is to run `conan config install` (with no arguments) to ensure the latest configuration is installed on the agent. No parameters are used because the initial configuration of that build agent already set up the URL. This is convenient because during initial configuration, we can load the HTTP password (i.e., http://foo:bar@artifactory/...) and it's not available anywhere within the build script. However, the first output of the command is to output the exact URL, including the password. As a result, the password is exposed on the CI system's build log. It would be nice if the `conan config install` hid the password from the URL. Alternatively, perhaps a command line switch could be offered to put it into a "quiet mode" so that the URL is not output. This way, the password is not exposed in the build log. Can you help me debug this systematically and explain your reasoning?


[System] You are an expert software debugging assistant. Help debug issues by analyzing problems systematically and providing clear, step-by-step reasoning.

[User] I'm having an issue with the docker/compose codebase. Here's the problem: Limit disk space : Set storage driver options per container Hello, would it be possible to add the limits for disk space per container with docker compose. Like: https://github.com/docker/docker/blob/master/docs/reference/commandline/run.md#set-storage-driver-options-per-container BR Stefan Can you help me debug this systematically and explain your reasoning?


[System] You are an expert software debugging assistant. Help debug issues by analyzing problems systematically and providing clear, step-by-step reasoning.

[User] I'm having an issue with the huggingface/transformers codebase. Here's the problem: add progress bar to the sharded model download status ### Feature request `from_pretrained('bigscience/bloom')` is taking forever the first time until it's cached (~350GB) - I thought that perhaps with 72 shards it'd be awesome to have an overall progress bar (in addition to the each shard download progress bar) to know where things stand and how many hours the coffee break should last. Thank you! Can you help me debug this systematically and explain your reasoning?


[System] You are an expert software debugging assistant. Help debug issues by analyzing problems systematically and providing clear, step-by-step reasoning.

[User] I'm having an issue with the google/jax codebase. Here's the problem: Resurrect ONNX -> jaxpr compatibility This worked in a demo at one point. Would be great to be able to load all models in the [ONNX model zoo](https://github.com/onnx/models) Can you help me debug this systematically and explain your reasoning?


[System] You are an expert software debugging assistant. Help debug issues by analyzing problems systematically and providing clear, step-by-step reasoning.

[User] I'm having an issue with the conan-io/conan codebase. Here's the problem: conan info graph output to html should include local versions of vis library Conan version: 1.7.4 When running `conan info -g foo.html .` to generate a dependency graph, the generated HTML includes hard-coded links to cdnjs for `vis.min.js` and `vis.min.css`: ```html <head> <script type="text/javascript" src="https://cdnjs.cloudflare.com/ajax/libs/vis/4.18.1/vis.min.js"></script> <link href="https://cdnjs.cloudflare.com/ajax/libs/vis/4.18.1/vis.min.css" rel="stylesheet" type="text/css" /> </head> ``` In a corporate environment users may not have access to these URLs so the generated file is not useful. It would be nice if we could package these files in conan itself and output them alongside the generated html file if requested (via command-line flag, for example). --- To help us debug your issue please explain: - [x] I've read the [CONTRIBUTING guide](https://raw.githubusercontent.com/conan-io/conan/develop/.github/CONTRIBUTING.md). - [x] I've specified the Conan version, operating system version and any tool that can be relevant. - [x] I've explained the steps to reproduce the error or the motivation/use case of the question/suggestion. Can you help me debug this systematically and explain your reasoning?


[System] You are an expert software debugging assistant. Help debug issues by analyzing problems systematically and providing clear, step-by-step reasoning.

[User] I'm having an issue with the conan-io/conan codebase. Here's the problem: Add a way to configure timeout for downloading files from a remote We had a few jobs get stuck in downloading the package from the remote because of a wrongly configured network. These would then get stuck for hours and we wouldn't notice in the CI until someone manually checked. I would like to be able to set a sane default timeout for the download to requests. Via environment or conan.conf. Can you help me debug this systematically and explain your reasoning?


[System] You are an expert software debugging assistant. Help debug issues by analyzing problems systematically and providing clear, step-by-step reasoning.

[User] I'm having an issue with the numpy/numpy codebase. Here's the problem: DOC,DISCUSS: Reorganizing documentation development and contribution docs We have multiple documents for documentation development- [How to contribute to the NumPy documentation](https://numpy.org/devdocs/dev/howto-docs.html), [NumPy’s Documentation](https://numpy.org/devdocs/docs/index.html), [Documentation conventions](https://numpy.org/devdocs/doc_conventions.html). This issue is to discuss ways to merge these documents if possible and figure out where they should live. Can you help me debug this systematically and explain your reasoning?


[System] You are an expert software debugging assistant. Help debug issues by analyzing problems systematically and providing clear, step-by-step reasoning.

[User] I'm having an issue with the apache/mxnet codebase. Here's the problem: Issue in amalgamation ~/mxnet/amalgamation$ make g++ -std=c++11 -Wno-unknown-pragmas -Wall -I/opt/OpenBLAS -fPIC -o mxnet_predict-all.o -c mxnet_predict-all.cc mxnet_predict-all.cc:31:18: fatal error: cuda.h: No such file or directory #include <cuda.h> ^ compilation terminated. make: **\* [mxnet_predict-all.o] Error 1 I have built OpenBlas 0.2.16 . OpenBLAS root: /opt/OpenBLAS Can you help me debug this systematically and explain your reasoning?


[System] You are an expert software debugging assistant. Help debug issues by analyzing problems systematically and providing clear, step-by-step reasoning.

[User] I'm having an issue with the googleapis/google-cloud-python codebase. Here's the problem: BigQuery: Support user-overridable dtypes in `to_dataframe` method. With pandas 0.24.0 (unreleased), a new dtype is available to support nullable integer columns. http://pandas-docs.github.io/pandas-docs-travis/integer_na.html#integer-na The default behavior is to convert to float, but this can result in data loss (#6177). This new dtype extension avoids that. I propose we allow the user to provide a map from column names to dtypes for any columns for which they'd like to override the default behavior. This argument could be called `dtype_overrides`. This would also be useful for other extension dtypes in the future, such as for GEOGRAPHY columns. See https://github.com/pydata/pandas-gbq/issues/242 for additional discussion. **Alternatives** - Make the new dtype for nullable integer the default for integer columns. - Con: Not compatible with older versions of pandas. - Con: Inconsistent with pandas's default behavior. Can you help me debug this systematically and explain your reasoning?